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index d15f1dde..956ccf04 100644
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles">
+<li><a class="dropdown-item" href="articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="news/index.html">Changelog</a></li>
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="search.json">
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diff --git a/LICENSE-text.html b/LICENSE-text.html
index 4b0c7a66..3b7cfe6a 100644
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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     <a class="navbar-brand me-2" href="index.html">agridat</a>
 
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="news/index.html">Changelog</a></li>
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diff --git a/LICENSE.html b/LICENSE.html
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diff --git a/articles/agridat_data.html b/articles/agridat_data.html
index 6e8d1b41..30e3355b 100644
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@@ -86,7 +70,7 @@ <h4 data-toc-skip class="author">Kevin
 Wright</h4>
             
       
-      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/vignettes/agridat_data.Rmd" class="external-link"><code>vignettes/agridat_data.Rmd</code></a></small>
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/vignettes/agridat_data.Rmd" class="external-link"><code>vignettes/agridat_data.Rmd</code></a></small>
       <div class="d-none name"><code>agridat_data.Rmd</code></div>
     </div>
 
@@ -812,6 +796,13 @@ <h4 id="van-der-voet-et-al--2017-">van der Voet et al. (2017).<a class="anchor"
 CC license.</p>
 </div>
 <div class="section level4">
+<h4 id="volpato-et-al-2024">Volpato et al (2024)<a class="anchor" aria-label="anchor" href="#volpato-et-al-2024"></a>
+</h4>
+<p>A retrospective analysis of historical data of multi-environment
+trials for dry bean ( Phaseolus vulgaris L.) in Michigan. <a href="https://github.com/msudrybeanbreeding/DryBean_MultiEnvTrials" class="external-link uri">https://github.com/msudrybeanbreeding/DryBean_MultiEnvTrials</a>
+Full dataset and R code.</p>
+</div>
+<div class="section level4">
 <h4 id="xavier-alencar-et-al--">Xavier, Alencar et al..<a class="anchor" aria-label="anchor" href="#xavier-alencar-et-al--"></a>
 </h4>
 <p>Genome-Wide Analysis of Grain Yield Stability and Environmental
@@ -1037,9 +1028,14 @@ <h4 id="soynam---soybean-nested-association-mapping">SoyNAM - Soybean nested ass
 <div class="section level4">
 <h4 id="soyurt">SoyURT<a class="anchor" aria-label="anchor" href="#soyurt"></a>
 </h4>
-<p><a href="https://github.com/mdkrause/SoyURT" class="external-link uri">https://github.com/mdkrause/SoyURT</a> Large historical data
-to study GxE and identify mega-environments with genetic and non-genetic
-factors.</p>
+<p><a href="https://github.com/mdkrause/SoyURT" class="external-link uri">https://github.com/mdkrause/SoyURT</a></p>
+<p>Large historical data of yield trials from Uniform Soybean Tests
+Northern States. Years 1989-2019, 63 locations, 4257 genotypes. The
+package also contains soils and weather data for the trial
+locations.</p>
+<p>Note: The USDA published papers with results from: National Cotton
+Variety Tests, Uniform Soybean Tests Northern States, and Uniform
+Soybean Tests Southern States here: <a href="https://www.ars.usda.gov/southeast-area/stoneville-ms/crop-genetics-research/docs/" class="external-link uri">https://www.ars.usda.gov/southeast-area/stoneville-ms/crop-genetics-research/docs/</a></p>
 </div>
 <div class="section level4">
 <h4 id="spdep">spdep<a class="anchor" aria-label="anchor" href="#spdep"></a>
@@ -1232,7 +1228,7 @@ <h4 id="usda-national-agricultural-statistics-service">USDA National Agricultura
 etc.</p>
 </div>
 </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside>
 </div>
 
@@ -1243,15 +1239,15 @@ <h4 id="usda-national-agricultural-statistics-service">USDA National Agricultura
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index 68e6a303..68c1b60b 100644
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+++ b/articles/agridat_graphical_gems.html
@@ -5,7 +5,6 @@
 <meta charset="utf-8">
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@@ -86,7 +70,7 @@ <h4 data-toc-skip class="author">Kevin
 Wright</h4>
             
       
-      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/vignettes/agridat_graphical_gems.Rmd" class="external-link"><code>vignettes/agridat_graphical_gems.Rmd</code></a></small>
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/vignettes/agridat_graphical_gems.Rmd" class="external-link"><code>vignettes/agridat_graphical_gems.Rmd</code></a></small>
       <div class="d-none name"><code>agridat_graphical_gems.Rmd</code></div>
     </div>
 
@@ -213,11 +197,14 @@ <h2 id="d-yield-response-to-fertilizers">3D yield response to fertilizers<a clas
 yields as a function of sulfur and phosphorous fertilizer in a
 factorial-treatment experiment. <span class="citation">@dodds1996bivariate</span> modeled the yield response
 using a Mitzerlisch-like equation that allows interacting curvature in
-two dimensions <span class="math inline">\(x\)</span> and <span class="math inline">\(y\)</span>: <span class="math display">\[
-yield = \alpha * \left( 1 + \beta *\left(\frac{\sigma +
-\tau*x}{x+1}\right)^y\right) *
+two dimensions
+<math display="inline" xmlns="http://www.w3.org/1998/Math/MathML"><semantics><mi>x</mi><annotation encoding="application/x-tex">x</annotation></semantics></math>
+and
+<math display="inline" xmlns="http://www.w3.org/1998/Math/MathML"><semantics><mi>y</mi><annotation encoding="application/x-tex">y</annotation></semantics></math>:
+<math display="block" xmlns="http://www.w3.org/1998/Math/MathML"><semantics><mrow><mi>y</mi><mi>i</mi><mi>e</mi><mi>l</mi><mi>d</mi><mo>=</mo><mi>α</mi><mo>*</mo><mrow><mo stretchy="true" form="prefix">(</mo><mn>1</mn><mo>+</mo><mi>β</mi><mo>*</mo><msup><mrow><mo stretchy="true" form="prefix">(</mo><mfrac><mrow><mi>σ</mi><mo>+</mo><mi>τ</mi><mo>*</mo><mi>x</mi></mrow><mrow><mi>x</mi><mo>+</mo><mn>1</mn></mrow></mfrac><mo stretchy="true" form="postfix">)</mo></mrow><mi>y</mi></msup><mo stretchy="true" form="postfix">)</mo></mrow><mo>*</mo><mrow><mo stretchy="true" form="prefix">(</mo><mn>1</mn><mo>+</mo><mi>δ</mi><mo>*</mo><msup><mrow><mo stretchy="true" form="prefix">(</mo><mfrac><mrow><mi>θ</mi><mo>+</mo><mi>ρ</mi><mo>*</mo><mi>y</mi></mrow><mrow><mi>y</mi><mo>+</mo><mn>1</mn></mrow></mfrac><mo stretchy="true" form="postfix">)</mo></mrow><mi>x</mi></msup><mo stretchy="true" form="postfix">)</mo></mrow></mrow><annotation encoding="application/x-tex">
+yield = \alpha * \left( 1 + \beta *\left(\frac{\sigma + \tau*x}{x+1}\right)^y\right) *
 \left( 1+\delta*\left(\frac{\theta + \rho *y}{y+1}\right)^x \right)
-\]</span>
+</annotation></semantics></math></p>
 <p>The blue dots are observed data, and the tan surface is the fitted
 surface drawn by the <code>rgl</code> package).</p>
 <p>How would you decide the optimal fertilizer levels?</p>
@@ -316,7 +303,7 @@ <h2 id="time-series-of-corn-yields-by-state">Time series of corn yields by state
 <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a>
 </h2>
 </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside>
 </div>
 
@@ -327,15 +314,15 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 </div>
 
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index 08442281..180ab632 100644
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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@@ -86,7 +70,7 @@ <h4 data-toc-skip class="author">Kevin
 Wright</h4>
             
       
-      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/vignettes/agridat_intro.Rmd" class="external-link"><code>vignettes/agridat_intro.Rmd</code></a></small>
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/vignettes/agridat_intro.Rmd" class="external-link"><code>vignettes/agridat_intro.Rmd</code></a></small>
       <div class="d-none name"><code>agridat_intro.Rmd</code></div>
     </div>
 
@@ -159,7 +143,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 <p>Stephen Wolfram (2017). Launching the Wolfram Data Repository: Data
 Publishing that Really Works. <a href="https://writings.stephenwolfram.com/2017/04/launching-the-wolfram-data-repository-data-publishing-that-really-works/" class="external-link uri">https://writings.stephenwolfram.com/2017/04/launching-the-wolfram-data-repository-data-publishing-that-really-works/</a></p>
 </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -170,15 +154,15 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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+      <img src="../logo.png" class="logo" alt=""><h1>Example generalized linear mixed model analysis with different packages</h1>
+                        <h4 data-toc-skip class="author">Kevin
+Wright</h4>
+            
+      
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/vignettes/agridat_mixed_model_example.Rmd" class="external-link"><code>vignettes/agridat_mixed_model_example.Rmd</code></a></small>
+      <div class="d-none name"><code>agridat_mixed_model_example.Rmd</code></div>
+    </div>
+
+    
+    
+<div class="sourceCode" id="cb1"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">crowder.seeds</span><span class="op">)</span></span>
+<span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">crowder.seeds</span></span></code></pre></div>
+<div class="sourceCode" id="cb2"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span><span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">germ</span><span class="op">/</span><span class="va">n</span><span class="op">~</span><span class="va">gen</span><span class="op">|</span><span class="va">extract</span>, <span class="va">dat</span>, main<span class="op">=</span><span class="st">"crowder.seeds"</span>, xlab<span class="op">=</span><span class="st">"gen"</span><span class="op">)</span></span></code></pre></div>
+<p><img src="agridat_mixed_model_example_files/figure-html/plot-1.png" width="700"></p>
+<p>The response variable on the vertical axis is the germination
+percent.</p>
+<p>There are two predictive factors, <code>gen</code> (O73, O75) and
+<code>extract</code> (bean/cucumber).</p>
+<p>Each dot is for a separate plate.</p>
+<div class="section level2">
+<h2 id="glm-not-mixedno-random-plate">GLM (not mixed–no random plate)<a class="anchor" aria-label="anchor" href="#glm-not-mixedno-random-plate"></a>
+</h2>
+<div class="section level4">
+<h4 id="brms">brms<a class="anchor" aria-label="anchor" href="#brms"></a>
+</h4>
+<p>It takes a minute or so to compile Stan program…</p>
+<p>Note, in Emacs brms ends the R process for some reason!</p>
+<div class="sourceCode" id="cb3"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="kw">if</span><span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://github.com/paul-buerkner/brms" class="external-link">brms</a></span><span class="op">)</span><span class="op">)</span><span class="op">{</span></span>
+<span>  <span class="va">m1.brms</span> <span class="op">&lt;-</span> <span class="fu">brms</span><span class="fu">::</span><span class="fu">brm</span><span class="op">(</span> <span class="va">germ</span><span class="op">|</span><span class="fu">trials</span><span class="op">(</span><span class="va">n</span><span class="op">)</span><span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span>
+<span>     data <span class="op">=</span> <span class="va">dat</span>,</span>
+<span>     family <span class="op">=</span> <span class="va">binomial</span>,</span>
+<span>     chains<span class="op">=</span><span class="fl">3</span>, iter<span class="op">=</span><span class="fl">3000</span>, warmup<span class="op">=</span><span class="fl">1000</span><span class="op">)</span></span>
+<span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.brms</span><span class="op">)</span></span>
+<span>  <span class="co"># round(  summary(m1.brms)$fixed[,1:4] , 2)</span></span>
+<span>  <span class="co">#                        Estimate Est.Error l-95% CI u-95% CI</span></span>
+<span>  <span class="co"># Intercept                 -0.42      0.18    -0.77    -0.06</span></span>
+<span>  <span class="co"># genO75                    -0.14      0.22    -0.56     0.29</span></span>
+<span>  <span class="co"># extractcucumber            0.55      0.25     0.07     1.05</span></span>
+<span>  <span class="co"># genO75:extractcucumber     0.77      0.30     0.18     1.36</span></span>
+<span><span class="op">}</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="glm">glm<a class="anchor" aria-label="anchor" href="#glm"></a>
+</h4>
+<div class="sourceCode" id="cb4"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="co"># ----- GLM.</span></span>
+<span><span class="co"># family=binomial() fixes dispersion at 1</span></span>
+<span><span class="co"># family=quasibinomial() estimates dispersion, had larger std errors</span></span>
+<span><span class="va">m1.glm</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/glm.html" class="external-link">glm</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>,<span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span>
+<span>              data<span class="op">=</span><span class="va">dat</span>,</span>
+<span>              <span class="co">#family="binomial",</span></span>
+<span>              family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">quasibinomial</a></span><span class="op">(</span><span class="op">)</span></span>
+<span>              <span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.glm</span><span class="op">)</span> </span>
+<span><span class="co">## round(summary(m1.glm)$coef,2)</span></span>
+<span><span class="co">##                        Estimate Std. Error t value Pr(&gt;|t|)</span></span>
+<span><span class="co">## (Intercept)               -0.41       0.25   -1.64     0.12</span></span>
+<span><span class="co">## genO75                    -0.15       0.30   -0.48     0.64</span></span>
+<span><span class="co">## extractcucumber            0.54       0.34    1.58     0.13</span></span>
+<span><span class="co">## genO75:extractcucumber     0.78       0.42    1.86     0.08</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="rstan">rstan<a class="anchor" aria-label="anchor" href="#rstan"></a>
+</h4>
+<div class="sourceCode" id="cb5"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span>  <span class="co"># ----- Stan using pre-built models from rstanarm</span></span>
+<span>  <span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">tidyverse</span>, <span class="va">rstan</span>, <span class="va">rstanarm</span>,<span class="va">bayesplot</span><span class="op">)</span></span>
+<span>  <span class="fu"><a href="https://rdrr.io/r/base/Random.html" class="external-link">set.seed</a></span><span class="op">(</span><span class="fl">42</span><span class="op">)</span></span>
+<span>  <span class="va">m1.stan</span> <span class="op">&lt;-</span> <span class="fu">stan_glm</span><span class="op">(</span> <span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>,<span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span>
+<span>                      data<span class="op">=</span><span class="va">dat</span>,</span>
+<span>                      family <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span>link<span class="op">=</span><span class="st">"logit"</span><span class="op">)</span>  <span class="op">)</span></span>
+<span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.stan</span><span class="op">)</span></span>
+<span>  <span class="co">## round(posterior_interval(m1.stan, prob=.90),3)</span></span>
+<span>  <span class="co">#                            5%    95%</span></span>
+<span>  <span class="co"># (Intercept)            -0.728 -0.115</span></span>
+<span>  <span class="co"># genO75                 -0.506  0.243</span></span>
+<span>  <span class="co"># extractcucumber         0.133  0.947</span></span>
+<span>  <span class="co"># genO75:extractcucumber  0.255  1.267</span></span>
+<span></span>
+<span>  <span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">bayesplot</span><span class="op">)</span></span>
+<span>  <span class="fu">mcmc_areas</span><span class="op">(</span><span class="va">m1.stan</span>, prob <span class="op">=</span> <span class="fl">0.9</span><span class="op">)</span> <span class="op">+</span></span>
+<span>    <span class="fu">ggtitle</span><span class="op">(</span><span class="st">"Posterior distributions"</span>,</span>
+<span>            <span class="st">"with medians and 95 pct intervals"</span><span class="op">)</span></span></code></pre></div>
+</div>
+</div>
+<div class="section level2">
+<h2 id="generalized-linear-mixed-model">Generalized Linear Mixed Model<a class="anchor" aria-label="anchor" href="#generalized-linear-mixed-model"></a>
+</h2>
+<div class="section level4">
+<h4 id="asreml">asreml<a class="anchor" aria-label="anchor" href="#asreml"></a>
+</h4>
+<div class="sourceCode" id="cb6"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="kw">if</span><span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va">asreml</span><span class="op">)</span><span class="op">)</span><span class="op">{</span></span>
+<span>  <span class="va">m1.asreml</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">germ</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span>
+<span>                      data<span class="op">=</span><span class="va">dat</span>,</span>
+<span>                      random<span class="op">=</span> <span class="op">~</span> <span class="va">plate</span>,</span>
+<span>                      family<span class="op">=</span><span class="fu">asr_binomial</span><span class="op">(</span>dispersion<span class="op">=</span><span class="fl">1</span>, total<span class="op">=</span><span class="va">n</span><span class="op">)</span><span class="op">)</span></span>
+<span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.asreml</span><span class="op">)</span></span>
+<span>  <span class="co">## </span></span>
+<span>  <span class="co">##                          effect</span></span>
+<span>  <span class="co">## (Intercept)               -0.47</span></span>
+<span>  <span class="co">## gen_O73                    0.00</span></span>
+<span>  <span class="co">## gen_O75                   -0.08</span></span>
+<span>  <span class="co">## extract_bean               0.00</span></span>
+<span>  <span class="co">## extract_cucumber           0.51</span></span>
+<span>  <span class="co">## gen_O73:extract_bean       0.00</span></span>
+<span>  <span class="co">## gen_O73:extract_cucumber   0.00</span></span>
+<span>  <span class="co">## gen_O75:extract_bean       0.00</span></span>
+<span>  <span class="co">## gen_O75:extract_cucumber   0.83</span></span>
+<span>  </span>
+<span><span class="op">}</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="massglmmpql">MASS::glmmPQL<a class="anchor" aria-label="anchor" href="#massglmmpql"></a>
+</h4>
+<div class="sourceCode" id="cb7"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="co"># --- GLMM.  Assumes Gaussian random effects</span></span>
+<span><span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">MASS</span><span class="op">)</span></span>
+<span><span class="va">m1.glmm</span> <span class="op">&lt;-</span> <span class="fu">glmmPQL</span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>, <span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span>
+<span>                   random<span class="op">=</span> <span class="op">~</span><span class="fl">1</span><span class="op">|</span><span class="va">plate</span>,</span>
+<span>                   family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.glmm</span><span class="op">)</span></span>
+<span><span class="co">## round(summary(m1.glmm)$tTable,2)</span></span>
+<span><span class="co">##                        Value Std.Error DF t-value p-value</span></span>
+<span><span class="co">## (Intercept)            -0.44      0.25 17   -1.80    0.09</span></span>
+<span><span class="co">## genO75                 -0.10      0.31 17   -0.34    0.74</span></span>
+<span><span class="co">## extractcucumber         0.52      0.34 17    1.56    0.14</span></span>
+<span><span class="co">## genO75:extractcucumber  0.80      0.42 17    1.88    0.08</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="glmmtmb">glmmTMB<a class="anchor" aria-label="anchor" href="#glmmtmb"></a>
+</h4>
+<div class="sourceCode" id="cb8"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">glmmTMB</span><span class="op">)</span></span>
+<span><span class="va">m1.glmmtmb</span> <span class="op">&lt;-</span> <span class="fu">glmmTMB</span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>, <span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">plate</span><span class="op">)</span>,</span>
+<span>                      data<span class="op">=</span><span class="va">dat</span>,</span>
+<span>                      family<span class="op">=</span><span class="va">binomial</span><span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.glmmtmb</span><span class="op">)</span><span class="op">$</span><span class="va">coefficients</span><span class="op">$</span><span class="va">cond</span> , <span class="fl">2</span><span class="op">)</span></span>
+<span><span class="co">##                        Estimate Std. Error z value Pr(&gt;|z|)</span></span>
+<span><span class="co">## (Intercept)               -0.45       0.22   -2.03     0.04</span></span>
+<span><span class="co">## genO75                    -0.10       0.28   -0.35     0.73</span></span>
+<span><span class="co">## extractcucumber            0.53       0.30    1.74     0.08</span></span>
+<span><span class="co">## genO75:extractcucumber     0.81       0.38    2.11     0.04</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="hglm">hglm<a class="anchor" aria-label="anchor" href="#hglm"></a>
+</h4>
+<div class="sourceCode" id="cb9"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="co"># ----- HGML package. Beta-binomial with beta-distributed random effects</span></span>
+<span><span class="kw">if</span><span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va">hglm</span><span class="op">)</span><span class="op">)</span><span class="op">{</span></span>
+<span>  <span class="va">m1.hglm</span> <span class="op">&lt;-</span> <span class="fu">hglm</span><span class="op">(</span>fixed<span class="op">=</span> <span class="va">germ</span><span class="op">/</span><span class="va">n</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/base/AsIs.html" class="external-link">I</a></span><span class="op">(</span><span class="va">gen</span><span class="op">==</span><span class="st">"O75"</span><span class="op">)</span><span class="op">*</span><span class="va">extract</span>, weights<span class="op">=</span><span class="va">n</span>, data<span class="op">=</span><span class="va">dat</span>,</span>
+<span>                  random<span class="op">=</span><span class="op">~</span><span class="fl">1</span><span class="op">|</span><span class="va">plate</span>, family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span><span class="op">)</span>, rand.family<span class="op">=</span><span class="fu">Beta</span><span class="op">(</span><span class="op">)</span>,</span>
+<span>                  fix.disp<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span>
+<span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.hglm</span><span class="op">)</span></span>
+<span>  <span class="co"># round(summary(m1.hglm)$FixCoefMat,2)</span></span>
+<span>  <span class="co">##                                     Estimate Std. Error t-value Pr(&gt;|t|)</span></span>
+<span>  <span class="co">## (Intercept)                            -0.47       0.24   -1.92     0.08</span></span>
+<span>  <span class="co">## I(gen == "O75")TRUE                    -0.08       0.31   -0.25     0.81</span></span>
+<span>  <span class="co">## extractcucumber                         0.51       0.33    1.53     0.16</span></span>
+<span>  <span class="co">## I(gen == "O75")TRUE:extractcucumber     0.83       0.43    1.92     0.08</span></span>
+<span><span class="op">}</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="inla">INLA<a class="anchor" aria-label="anchor" href="#inla"></a>
+</h4>
+<p>See: <a href="https://haakonbakka.bitbucket.io/btopic102.html" class="external-link uri">https://haakonbakka.bitbucket.io/btopic102.html</a></p>
+<div class="sourceCode" id="cb10"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="kw">if</span><span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va">INLA</span><span class="op">)</span><span class="op">)</span><span class="op">{</span></span>
+<span>  <span class="co">#gen,extract are fixed. plate is a random effect</span></span>
+<span>  <span class="co">#Priors for hyper parameters. See: inla.doc("pc.prec")</span></span>
+<span>  <span class="va">hyper1</span> <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>theta <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>prior<span class="op">=</span><span class="st">"pc.prec"</span>, param<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">0.01</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span>
+<span>  <span class="va">m1.inla</span> <span class="op">=</span> <span class="fu">inla</span><span class="op">(</span><span class="va">germ</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span> <span class="op">+</span> <span class="fu">f</span><span class="op">(</span><span class="va">plate</span>, model<span class="op">=</span><span class="st">"iid"</span>, hyper<span class="op">=</span><span class="va">hyper1</span><span class="op">)</span>,</span>
+<span>                 data<span class="op">=</span><span class="va">crowder.seeds</span>, </span>
+<span>                 family<span class="op">=</span><span class="st">"binomial"</span>, Ntrials<span class="op">=</span><span class="va">n</span>, </span>
+<span>                 control.family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>control.link<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>model<span class="op">=</span><span class="st">"logit"</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span>
+<span>  <span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span> <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.inla</span><span class="op">)</span><span class="op">$</span><span class="va">fixed</span>, <span class="fl">2</span><span class="op">)</span></span>
+<span>  <span class="co">##                         mean   sd 0.025quant 0.5quant 0.975quant  mode kld</span></span>
+<span>  <span class="co">## (Intercept)            -0.47 0.24      -0.96    -0.46       0.00 -0.46   0</span></span>
+<span>  <span class="co">## genO75                 -0.08 0.31      -0.68    -0.09       0.54 -0.09   0</span></span>
+<span>  <span class="co">## extractcucumber         0.53 0.33      -0.13     0.53       1.18  0.53   0</span></span>
+<span>  <span class="co">## genO75:extractcucumber  0.82 0.43      -0.01     0.82       1.69  0.82   0</span></span>
+<span><span class="op">}</span>  </span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="rjags">rjags<a class="anchor" aria-label="anchor" href="#rjags"></a>
+</h4>
+<p>Requires JAGS to be installed.</p>
+<div class="sourceCode" id="cb11"><pre class="downlit sourceCode r">
+<code class="sourceCode R"><span><span class="co"># JAGS/BUGS.  See https://mathstat.helsinki.fi/openbugs/Examples/Seeds.html</span></span>
+<span><span class="co"># Germination rate depends on p, which is a logit of a linear predictor</span></span>
+<span><span class="co"># based on genotype and extract, plus random deviation to intercept</span></span>
+<span></span>
+<span><span class="co"># To match the output on the BUGS web page, use: dat$gen=="O73".</span></span>
+<span><span class="co"># We use dat$gen=="O75" to compare with the parameterization above.</span></span>
+<span></span>
+<span><span class="va">jdat</span> <span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>germ <span class="op">=</span> <span class="va">dat</span><span class="op">$</span><span class="va">germ</span>, n <span class="op">=</span> <span class="va">dat</span><span class="op">$</span><span class="va">n</span>,</span>
+<span>root <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">extract</span><span class="op">==</span><span class="st">"cucumber"</span><span class="op">)</span>,</span>
+<span>gen <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">==</span><span class="st">"O75"</span><span class="op">)</span>,</span>
+<span>nobs <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/nrow.html" class="external-link">nrow</a></span><span class="op">(</span><span class="va">dat</span><span class="op">)</span><span class="op">)</span></span>
+<span></span>
+<span><span class="va">jinit</span> <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>int <span class="op">=</span> <span class="fl">0</span>, genO75 <span class="op">=</span> <span class="fl">0</span>, extcuke <span class="op">=</span> <span class="fl">0</span>, g75ecuke <span class="op">=</span> <span class="fl">0</span>, tau <span class="op">=</span> <span class="fl">10</span><span class="op">)</span></span>
+<span></span>
+<span><span class="co"># Use logical names (unlike BUGS documentation)</span></span>
+<span><span class="va">mod.bug</span> <span class="op">=</span></span>
+<span><span class="st">"model {</span></span>
+<span><span class="st">  for(i in 1:nobs) {</span></span>
+<span><span class="st">    germ[i] ~ dbin(p[i], n[i])</span></span>
+<span><span class="st">    b[i] ~ dnorm(0.0, tau)</span></span>
+<span><span class="st">    logit(p[i]) &lt;- int + genO75 * gen[i] + extcuke * root[i] +</span></span>
+<span><span class="st">                   g75ecuke * gen[i] * root[i] + b[i]</span></span>
+<span><span class="st">  }</span></span>
+<span><span class="st">  int ~ dnorm(0.0, 1.0E-6)</span></span>
+<span><span class="st">  genO75 ~ dnorm(0.0, 1.0E-6)</span></span>
+<span><span class="st">  extcuke ~ dnorm(0.0, 1.0E-6)</span></span>
+<span><span class="st">  g75ecuke ~ dnorm(0.0, 1.0E-6)</span></span>
+<span><span class="st">  tau ~ dgamma(0.001, 0.001)</span></span>
+<span><span class="st">  sigma &lt;- 1 / sqrt(tau)</span></span>
+<span><span class="st">}"</span></span>
+<span></span>
+<span><span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">rjags</span><span class="op">)</span></span>
+<span><span class="va">oo</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/textconnections.html" class="external-link">textConnection</a></span><span class="op">(</span><span class="va">mod.bug</span><span class="op">)</span></span>
+<span><span class="va">j1</span> <span class="op">&lt;-</span> <span class="fu">jags.model</span><span class="op">(</span><span class="va">oo</span>, data<span class="op">=</span><span class="va">jdat</span>, inits<span class="op">=</span><span class="va">jinit</span>, n.chains<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/base/connections.html" class="external-link">close</a></span><span class="op">(</span><span class="va">oo</span><span class="op">)</span></span>
+<span></span>
+<span><span class="va">c1</span> <span class="op">&lt;-</span> <span class="fu">coda.samples</span><span class="op">(</span><span class="va">j1</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"int"</span>,<span class="st">"genO75"</span>,<span class="st">"g75ecuke"</span>,<span class="st">"extcuke"</span>,<span class="st">"sigma"</span><span class="op">)</span>,</span>
+<span>                   n.iter<span class="op">=</span><span class="fl">20000</span><span class="op">)</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">c1</span><span class="op">)</span> <span class="co"># Medians are very similar to estimates from hglm</span></span>
+<span><span class="co"># libs(lucid)</span></span>
+<span><span class="co"># print(vc(c1),3)</span></span>
+<span><span class="co">##             Mean    SD    2.5%  Median   97.5%</span></span>
+<span><span class="co">## extcuke   0.543  0.331 -0.118   0.542   1.2   </span></span>
+<span><span class="co">## g75ecuke  0.807  0.436 -0.0586  0.802   1.7   </span></span>
+<span><span class="co">## genO75   -0.0715 0.309 -0.665  -0.0806  0.581 </span></span>
+<span><span class="co">## int      -0.479  0.241 -0.984  -0.473  -0.0299</span></span>
+<span><span class="co">## sigma     0.289  0.142  0.0505  0.279   0.596 </span></span>
+<span></span>
+<span><span class="co"># Plot observed data with HPD intervals for germination probability</span></span>
+<span><span class="va">c2</span> <span class="op">&lt;-</span> <span class="fu">coda.samples</span><span class="op">(</span><span class="va">j1</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"p"</span><span class="op">)</span>, n.iter<span class="op">=</span><span class="fl">20000</span><span class="op">)</span></span>
+<span><span class="va">hpd</span> <span class="op">&lt;-</span> <span class="fu">HPDinterval</span><span class="op">(</span><span class="va">c2</span><span class="op">)</span><span class="op">[[</span><span class="fl">1</span><span class="op">]</span><span class="op">]</span></span>
+<span><span class="va">med</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">c2</span>, quantiles<span class="op">=</span><span class="fl">.5</span><span class="op">)</span><span class="op">$</span><span class="va">quantiles</span></span>
+<span><span class="va">fit</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span><span class="va">med</span>, <span class="va">hpd</span><span class="op">)</span></span>
+<span></span>
+<span><span class="fu"><a href="../reference/libs.html">libs</a></span><span class="op">(</span><span class="va">latticeExtra</span><span class="op">)</span></span>
+<span><span class="va">obs</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="fl">1</span><span class="op">:</span><span class="fl">21</span> <span class="op">~</span> <span class="va">germ</span><span class="op">/</span><span class="va">n</span>, <span class="va">dat</span>,</span>
+<span>               main<span class="op">=</span><span class="st">"crowder.seeds"</span>, ylab<span class="op">=</span><span class="st">"plate"</span>,</span>
+<span>               col<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">)</span>, pch<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">extract</span>,<span class="fl">1</span><span class="op">)</span><span class="op">)</span></span>
+<span><span class="va">obs</span> <span class="op">+</span> <span class="fu">segplot</span><span class="op">(</span><span class="fl">1</span><span class="op">:</span><span class="fl">21</span> <span class="op">~</span> <span class="va">lower</span> <span class="op">+</span> <span class="va">upper</span>, data<span class="op">=</span><span class="va">fit</span>, centers<span class="op">=</span><span class="va">med</span><span class="op">)</span></span></code></pre></div>
+</div>
+<div class="section level4">
+<h4 id="r2jags">R2jags<a class="anchor" aria-label="anchor" href="#r2jags"></a>
+</h4>
+<div class="sourceCode" id="cb12"><pre class="sourceCode r"><code class="sourceCode r"><span id="cb12-1"><a href="#cb12-1" tabindex="-1"></a><span class="fu">libs</span>(<span class="st">"agridat"</span>)</span>
+<span id="cb12-2"><a href="#cb12-2" tabindex="-1"></a><span class="fu">libs</span>(<span class="st">"R2jags"</span>)</span>
+<span id="cb12-3"><a href="#cb12-3" tabindex="-1"></a>dat <span class="ot">&lt;-</span> crowder.seeds</span>
+<span id="cb12-4"><a href="#cb12-4" tabindex="-1"></a></span>
+<span id="cb12-5"><a href="#cb12-5" tabindex="-1"></a><span class="co"># To match the output on the BUGS web page, use: dat$gen=="O73".</span></span>
+<span id="cb12-6"><a href="#cb12-6" tabindex="-1"></a><span class="co"># We use dat$gen=="O75" to compare with the parameterization above.</span></span>
+<span id="cb12-7"><a href="#cb12-7" tabindex="-1"></a>jdat <span class="ot">=</span><span class="fu">list</span>(<span class="at">germ =</span> dat<span class="sc">$</span>germ, <span class="at">n =</span> dat<span class="sc">$</span>n,</span>
+<span id="cb12-8"><a href="#cb12-8" tabindex="-1"></a>           <span class="at">root =</span> <span class="fu">as.numeric</span>(dat<span class="sc">$</span>extract<span class="sc">==</span><span class="st">"cucumber"</span>),</span>
+<span id="cb12-9"><a href="#cb12-9" tabindex="-1"></a>           <span class="at">gen =</span> <span class="fu">as.numeric</span>(dat<span class="sc">$</span>gen<span class="sc">==</span><span class="st">"O75"</span>),</span>
+<span id="cb12-10"><a href="#cb12-10" tabindex="-1"></a>           <span class="at">nobs =</span> <span class="fu">nrow</span>(dat))</span>
+<span id="cb12-11"><a href="#cb12-11" tabindex="-1"></a></span>
+<span id="cb12-12"><a href="#cb12-12" tabindex="-1"></a>jinit <span class="ot">=</span> <span class="fu">list</span>(<span class="fu">list</span>(<span class="at">int =</span> <span class="dv">0</span>, <span class="at">genO75 =</span> <span class="dv">0</span>, <span class="at">extcuke =</span> <span class="dv">0</span>, <span class="at">g75ecuke =</span> <span class="dv">0</span>, <span class="at">tau =</span> <span class="dv">10</span>))</span>
+<span id="cb12-13"><a href="#cb12-13" tabindex="-1"></a></span>
+<span id="cb12-14"><a href="#cb12-14" tabindex="-1"></a>mod.bug <span class="ot">=</span> <span class="cf">function</span>() {</span>
+<span id="cb12-15"><a href="#cb12-15" tabindex="-1"></a>  <span class="cf">for</span>(i <span class="cf">in</span> <span class="dv">1</span><span class="sc">:</span>nobs) {</span>
+<span id="cb12-16"><a href="#cb12-16" tabindex="-1"></a>    germ[i] <span class="sc">~</span> <span class="fu">dbin</span>(p[i], n[i])</span>
+<span id="cb12-17"><a href="#cb12-17" tabindex="-1"></a>    b[i] <span class="sc">~</span> <span class="fu">dnorm</span>(<span class="fl">0.0</span>, tau)</span>
+<span id="cb12-18"><a href="#cb12-18" tabindex="-1"></a>    <span class="fu">logit</span>(p[i]) <span class="ot">&lt;-</span> int <span class="sc">+</span> genO75 <span class="sc">*</span> gen[i] <span class="sc">+</span> extcuke <span class="sc">*</span> root[i] <span class="sc">+</span></span>
+<span id="cb12-19"><a href="#cb12-19" tabindex="-1"></a>      g75ecuke <span class="sc">*</span> gen[i] <span class="sc">*</span> root[i] <span class="sc">+</span> b[i]</span>
+<span id="cb12-20"><a href="#cb12-20" tabindex="-1"></a>  }</span>
+<span id="cb12-21"><a href="#cb12-21" tabindex="-1"></a>  int <span class="sc">~</span> <span class="fu">dnorm</span>(<span class="fl">0.0</span>, <span class="fl">1.0E-6</span>)</span>
+<span id="cb12-22"><a href="#cb12-22" tabindex="-1"></a>  genO75 <span class="sc">~</span> <span class="fu">dnorm</span>(<span class="fl">0.0</span>, <span class="fl">1.0E-6</span>)</span>
+<span id="cb12-23"><a href="#cb12-23" tabindex="-1"></a>  extcuke <span class="sc">~</span> <span class="fu">dnorm</span>(<span class="fl">0.0</span>, <span class="fl">1.0E-6</span>)</span>
+<span id="cb12-24"><a href="#cb12-24" tabindex="-1"></a>  g75ecuke <span class="sc">~</span> <span class="fu">dnorm</span>(<span class="fl">0.0</span>, <span class="fl">1.0E-6</span>)</span>
+<span id="cb12-25"><a href="#cb12-25" tabindex="-1"></a>  tau <span class="sc">~</span> <span class="fu">dgamma</span>(<span class="fl">0.001</span>, <span class="fl">0.001</span>)</span>
+<span id="cb12-26"><a href="#cb12-26" tabindex="-1"></a>  sigma <span class="ot">&lt;-</span> <span class="dv">1</span> <span class="sc">/</span> <span class="fu">sqrt</span>(tau)</span>
+<span id="cb12-27"><a href="#cb12-27" tabindex="-1"></a>}</span>
+<span id="cb12-28"><a href="#cb12-28" tabindex="-1"></a></span>
+<span id="cb12-29"><a href="#cb12-29" tabindex="-1"></a>parms <span class="ot">&lt;-</span> <span class="fu">c</span>(<span class="st">"int"</span>,<span class="st">"genO75"</span>,<span class="st">"g75ecuke"</span>,<span class="st">"extcuke"</span>,<span class="st">"sigma"</span>)</span>
+<span id="cb12-30"><a href="#cb12-30" tabindex="-1"></a></span>
+<span id="cb12-31"><a href="#cb12-31" tabindex="-1"></a>j1 <span class="ot">&lt;-</span> <span class="fu">jags</span>(<span class="at">data=</span>jdat, <span class="at">inits=</span>jinit, parms, <span class="at">model.file=</span>mod.bug,</span>
+<span id="cb12-32"><a href="#cb12-32" tabindex="-1"></a>           <span class="at">n.iter=</span><span class="dv">20000</span>, <span class="at">n.chains=</span><span class="dv">1</span>)</span>
+<span id="cb12-33"><a href="#cb12-33" tabindex="-1"></a><span class="fu">print</span>(j1)</span>
+<span id="cb12-34"><a href="#cb12-34" tabindex="-1"></a><span class="do">##          mu.vect sd.vect   2.5%    25%     50%     75%   97.5%</span></span>
+<span id="cb12-35"><a href="#cb12-35" tabindex="-1"></a><span class="do">## extcuke    0.519   0.325 -0.140  0.325   0.531   0.728   1.158</span></span>
+<span id="cb12-36"><a href="#cb12-36" tabindex="-1"></a><span class="do">## g75ecuke   0.834   0.429 -0.019  0.552   0.821   1.101   1.710</span></span>
+<span id="cb12-37"><a href="#cb12-37" tabindex="-1"></a><span class="do">## genO75    -0.096   0.305 -0.670 -0.295  -0.115   0.089   0.552</span></span>
+<span id="cb12-38"><a href="#cb12-38" tabindex="-1"></a><span class="do">## int       -0.461   0.236 -0.965 -0.603  -0.455  -0.312   0.016</span></span>
+<span id="cb12-39"><a href="#cb12-39" tabindex="-1"></a><span class="do">## sigma      0.255   0.148  0.033  0.140   0.240   0.352   0.572</span></span>
+<span id="cb12-40"><a href="#cb12-40" tabindex="-1"></a><span class="do">## deviance 103.319   7.489 90.019 98.010 102.770 108.689 117.288</span></span>
+<span id="cb12-41"><a href="#cb12-41" tabindex="-1"></a></span>
+<span id="cb12-42"><a href="#cb12-42" tabindex="-1"></a><span class="fu">traceplot</span>(<span class="fu">as.mcmc</span>(j1))</span>
+<span id="cb12-43"><a href="#cb12-43" tabindex="-1"></a><span class="fu">densityplot</span>(<span class="fu">as.mcmc</span>(j1))</span>
+<span id="cb12-44"><a href="#cb12-44" tabindex="-1"></a><span class="fu">HPDinterval</span>(<span class="fu">as.mcmc</span>(j1))</span>
+<span id="cb12-45"><a href="#cb12-45" tabindex="-1"></a></span>
+<span id="cb12-46"><a href="#cb12-46" tabindex="-1"></a><span class="er">}</span></span></code></pre></div>
+</div>
+</div>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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index 7d02fc73..61443f71 100644
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@@ -86,7 +70,7 @@ <h4 data-toc-skip class="author">Kevin
 Wright</h4>
             
       
-      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/vignettes/agridat_uniformity_data.Rmd" class="external-link"><code>vignettes/agridat_uniformity_data.Rmd</code></a></small>
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/vignettes/agridat_uniformity_data.Rmd" class="external-link"><code>vignettes/agridat_uniformity_data.Rmd</code></a></small>
       <div class="d-none name"><code>agridat_uniformity_data.Rmd</code></div>
     </div>
 
@@ -299,7 +283,7 @@ <h2 id="paper-not-found">Paper not found<a class="anchor" aria-label="anchor" hr
 science, 41, 857-861. <a href="https://eurekamag.com/research/000/153/000153659.php" class="external-link uri">https://eurekamag.com/research/000/153/000153659.php</a> Not
 available.</p>
 <p>Murray, D.B. 1950. A uniformity trial with swamp rice. Tropical
-Agriculture <a href="https://journals.sta.uwi.edu/ta/index.asp?action=viewIssue&amp;issueId=406" class="external-link uri">https://journals.sta.uwi.edu/ta/index.asp?action=viewIssue&amp;issueId=406</a>
+Agriculture <a href="https://journals.sta.uwi.edu/ojs/index.php/ta/article/view/4964" class="external-link uri">https://journals.sta.uwi.edu/ojs/index.php/ta/article/view/4964</a>
 No access.</p>
 <p>Pandya, H.R.; Upadhyay, S.M&gt;; Parmar, B.A. (2006). Analysis of
 uniformity trial on cotton. J. Ind. Soc. Agric. Statist, 60,
@@ -1087,6 +1071,10 @@ <h2 id="reviewed-papers">Reviewed papers<a class="anchor" aria-label="anchor" hr
 <p>McClelland, Chalmer Kirk (1926). Some determinations of plat
 variability. Agronomy Journal, 18, 819-823. <a href="https://doi.org/10.2134/agronj1926.00021962001800090009x" class="external-link uri">https://doi.org/10.2134/agronj1926.00021962001800090009x</a>
 agridat::mcclelland.corn.uniformity</p>
+<p>McGuire, Judson U. (1954). Uniformity Data From European Corn Borer,
+Pyrausta Nubilalis Hbn., Populations. [Ames, Ia.: s.n.], 1954. <a href="https://hdl.handle.net/2027/umn.31951000404095s" class="external-link uri">https://hdl.handle.net/2027/umn.31951000404095s</a>
+Reviewed. This publication has data relating to corn borer infestation
+of thousands of individual corn plants. Not used.</p>
 <p>Meier, V.D. and Lessman, K.J. (1971). Estimation of Optimum Field
 Plot Shape and Size for Testing Yield in Crambe abyssinica Hochst. Crop
 Science, 11: 648-650. <a href="https://doi.org/10.2135/cropsci1971.0011183X001100050013x" class="external-link uri">https://doi.org/10.2135/cropsci1971.0011183X001100050013x</a>
@@ -1690,7 +1678,7 @@ <h2 id="reviewed-papers">Reviewed papers<a class="anchor" aria-label="anchor" hr
 Reviewed. Limited data, 3 reps of 4x5.</p>
 <p>Zuhlke, Thomas A. and Gritton, E.T. (1969). Optimum Plot Size and
 Shape Estimates for Pea Yield Trials. Agron. J., 61: 905-908. <a href="https://doi.org/10.2134/agronj1969.00021962006100060023x" class="external-link uri">https://doi.org/10.2134/agronj1969.00021962006100060023x</a>
-Reviewed. No data.</p>
+Reviewed. No data. This paper is based on his thesis at W Wisconsin.</p>
 <p>Zuhlke, Thomas A. and Gritton, E.T. (1970). Relative Precision of
 Different Experimental Designs and Number of Replications in Pea Yield
 Trials. Agron J., 62, 61-64. <a href="https://doi.org/10.2134/agronj1970.00021962006200010020x" class="external-link uri">https://doi.org/10.2134/agronj1970.00021962006200010020x</a>
@@ -1951,7 +1939,7 @@ <h2 id="section-6">————————————————————
 </h2>
 <p>Geisler 1958. Downloaded. Uniformity trial (?) page 269.</p>
 </div>
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@@ -1962,15 +1950,15 @@ <h2 id="section-6">————————————————————
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
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+        <dd>
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@@ -73,14 +61,14 @@ <h3>All vignettes</h3>
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diff --git a/authors.html b/authors.html
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+    <li><a class="dropdown-item" href="articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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@@ -52,22 +38,22 @@
       <img src="logo.png" class="logo" alt=""><h1>Authors and Citation</h1>
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-    <div class="section level2 citation">
+    <div class="section level2">
       <h2>Authors</h2>
-      
+
       <ul class="list-unstyled"><li>
           <p><strong>Kevin Wright</strong>. Author, maintainer, copyright holder. <a href="https://orcid.org/0000-0002-0617-8673" target="orcid.widget" aria-label="ORCID" class="external-link"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a>
           </p>
         </li>
       </ul></div>
 
-    <div class="section level2 citation">
+    <div class="section level2">
       <h2 id="citation">Citation</h2>
-      <p><small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/DESCRIPTION" class="external-link"><code>DESCRIPTION</code></a></small></p>
+      <p><small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/DESCRIPTION" class="external-link"><code>DESCRIPTION</code></a></small></p>
 
       <p>Wright K (2024).
 <em>agridat: Agricultural Datasets</em>.
-R package version 1.23, <a href="https://kwstat.github.io/agridat/" class="external-link">https://kwstat.github.io/agridat/</a>. 
+R package version 1.23, <a href="https://kwstat.github.io/agridat/" class="external-link">https://kwstat.github.io/agridat/</a>.
 </p>
       <pre>@Manual{,
   title = {agridat: Agricultural Datasets},
@@ -77,7 +63,8 @@ <h2 id="citation">Citation</h2>
   url = {https://kwstat.github.io/agridat/},
 }</pre>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -86,14 +73,14 @@ <h2 id="citation">Citation</h2>
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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+
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diff --git a/deps/bootstrap-5.3.1/bootstrap.min.css b/deps/bootstrap-5.3.1/bootstrap.min.css
index d944a2a7..5d96aa0d 100644
--- a/deps/bootstrap-5.3.1/bootstrap.min.css
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#212529;--bs-btn-border-color: #212529;--bs-btn-hover-color: #fff;--bs-btn-hover-bg: #424649;--bs-btn-hover-border-color: #373b3e;--bs-btn-focus-shadow-rgb: 66,70,73;--bs-btn-active-color: #fff;--bs-btn-active-bg: #4d5154;--bs-btn-active-border-color: #373b3e;--bs-btn-active-shadow: inset 0 3px 5px rgba(0,0,0,0.125);--bs-btn-disabled-color: #fff;--bs-btn-disabled-bg: #212529;--bs-btn-disabled-border-color: #212529}.btn-outline-default{--bs-btn-color: #dee2e6;--bs-btn-border-color: #dee2e6;--bs-btn-hover-color: #000;--bs-btn-hover-bg: #dee2e6;--bs-btn-hover-border-color: #dee2e6;--bs-btn-focus-shadow-rgb: 222,226,230;--bs-btn-active-color: #000;--bs-btn-active-bg: #dee2e6;--bs-btn-active-border-color: #dee2e6;--bs-btn-active-shadow: inset 0 3px 5px rgba(0,0,0,0.125);--bs-btn-disabled-color: #dee2e6;--bs-btn-disabled-bg: transparent;--bs-btn-disabled-border-color: #dee2e6;--bs-btn-bg: transparent;--bs-gradient: none}.btn-outline-primary{--bs-btn-color: #0d6efd;--bs-btn-border-color: 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transparent;--bs-gradient: none}.btn-outline-light{--bs-btn-color: #f8f9fa;--bs-btn-border-color: #f8f9fa;--bs-btn-hover-color: #000;--bs-btn-hover-bg: #f8f9fa;--bs-btn-hover-border-color: #f8f9fa;--bs-btn-focus-shadow-rgb: 248,249,250;--bs-btn-active-color: #000;--bs-btn-active-bg: #f8f9fa;--bs-btn-active-border-color: #f8f9fa;--bs-btn-active-shadow: inset 0 3px 5px rgba(0,0,0,0.125);--bs-btn-disabled-color: #f8f9fa;--bs-btn-disabled-bg: transparent;--bs-btn-disabled-border-color: #f8f9fa;--bs-btn-bg: transparent;--bs-gradient: none}.btn-outline-dark{--bs-btn-color: #212529;--bs-btn-border-color: #212529;--bs-btn-hover-color: #fff;--bs-btn-hover-bg: #212529;--bs-btn-hover-border-color: #212529;--bs-btn-focus-shadow-rgb: 33,37,41;--bs-btn-active-color: #fff;--bs-btn-active-bg: #212529;--bs-btn-active-border-color: #212529;--bs-btn-active-shadow: inset 0 3px 5px rgba(0,0,0,0.125);--bs-btn-disabled-color: #212529;--bs-btn-disabled-bg: transparent;--bs-btn-disabled-border-color: #212529;--bs-btn-bg: transparent;--bs-gradient: none}.btn-link{--bs-btn-font-weight: 400;--bs-btn-color: var(--bs-link-color);--bs-btn-bg: transparent;--bs-btn-border-color: transparent;--bs-btn-hover-color: var(--bs-link-hover-color);--bs-btn-hover-border-color: transparent;--bs-btn-active-color: var(--bs-link-hover-color);--bs-btn-active-border-color: transparent;--bs-btn-disabled-color: #6c757d;--bs-btn-disabled-border-color: transparent;--bs-btn-box-shadow: 0 0 0 #000;--bs-btn-focus-shadow-rgb: 49,132,253;text-decoration:underline;-webkit-text-decoration:underline;-moz-text-decoration:underline;-ms-text-decoration:underline;-o-text-decoration:underline}.btn-link:focus-visible{color:var(--bs-btn-color)}.btn-link:hover{color:var(--bs-btn-hover-color)}.btn-lg,.btn-group-lg>.btn{--bs-btn-padding-y: .5rem;--bs-btn-padding-x: 1rem;--bs-btn-font-size:1.25rem;--bs-btn-border-radius: var(--bs-border-radius-lg)}.btn-sm,.btn-group-sm>.btn{--bs-btn-padding-y: .25rem;--bs-btn-padding-x: 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auto}.btn-group>.btn-check:checked+.btn,.btn-group>.btn-check:focus+.btn,.btn-group>.btn:hover,.btn-group>.btn:focus,.btn-group>.btn:active,.btn-group>.btn.active,.btn-group-vertical>.btn-check:checked+.btn,.btn-group-vertical>.btn-check:focus+.btn,.btn-group-vertical>.btn:hover,.btn-group-vertical>.btn:focus,.btn-group-vertical>.btn:active,.btn-group-vertical>.btn.active{z-index:1}.btn-toolbar{display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;justify-content:flex-start;-webkit-justify-content:flex-start}.btn-toolbar .input-group{width:auto}.btn-group{border-radius:var(--bs-border-radius)}.btn-group>:not(.btn-check:first-child)+.btn,.btn-group>.btn-group:not(:first-child){margin-left:calc(var(--bs-border-width) * -1)}.btn-group>.btn:not(:last-child):not(.dropdown-toggle),.btn-group>.btn.dropdown-toggle-split:first-child,.btn-group>.btn-group:not(:last-child)>.btn{border-top-right-radius:0;border-bottom-right-radius:0}.btn-group>.btn:nth-child(n + 3),.btn-group>:not(.btn-check)+.btn,.btn-group>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-bottom-left-radius:0}.dropdown-toggle-split{padding-right:.5625rem;padding-left:.5625rem}.dropdown-toggle-split::after,.dropup .dropdown-toggle-split::after,.dropend .dropdown-toggle-split::after{margin-left:0}.dropstart .dropdown-toggle-split::before{margin-right:0}.btn-sm+.dropdown-toggle-split,.btn-group-sm>.btn+.dropdown-toggle-split{padding-right:.375rem;padding-left:.375rem}.btn-lg+.dropdown-toggle-split,.btn-group-lg>.btn+.dropdown-toggle-split{padding-right:.75rem;padding-left:.75rem}.btn-group-vertical{flex-direction:column;-webkit-flex-direction:column;align-items:flex-start;-webkit-align-items:flex-start;justify-content:center;-webkit-justify-content:center}.btn-group-vertical>.btn,.btn-group-vertical>.btn-group{width:100%}.btn-group-vertical>.btn:not(:first-child),.btn-group-vertical>.btn-group:not(:first-child){margin-top:calc(var(--bs-border-width) * -1)}.btn-group-vertical>.btn:not(:last-child):not(.dropdown-toggle),.btn-group-vertical>.btn-group:not(:last-child)>.btn{border-bottom-right-radius:0;border-bottom-left-radius:0}.btn-group-vertical>.btn~.btn,.btn-group-vertical>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-top-right-radius:0}.nav{--bs-nav-link-padding-x: 1rem;--bs-nav-link-padding-y: .5rem;--bs-nav-link-font-weight: ;--bs-nav-link-color: var(--bs-link-color);--bs-nav-link-hover-color: var(--bs-link-hover-color);--bs-nav-link-disabled-color: var(--bs-secondary-color);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding-left:0;margin-bottom:0;list-style:none}.nav-link{display:block;padding:var(--bs-nav-link-padding-y) 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url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23052c65'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-focus-border-color: #86b7fe;--bs-accordion-btn-focus-box-shadow: 0 0 0 .25rem rgba(13,110,253,0.25);--bs-accordion-body-padding-x: 1.25rem;--bs-accordion-body-padding-y: 1rem;--bs-accordion-active-color: var(--bs-primary-text-emphasis);--bs-accordion-active-bg: var(--bs-primary-bg-subtle)}.accordion-button{position:relative;display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;width:100%;padding:var(--bs-accordion-btn-padding-y) var(--bs-accordion-btn-padding-x);font-size:1rem;color:var(--bs-accordion-btn-color);text-align:left;background-color:var(--bs-accordion-btn-bg);border:0;border-radius:0;overflow-anchor:none;transition:var(--bs-accordion-transition)}@media 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reduce){.accordion-button::after{transition:none}}.accordion-button:hover{z-index:2}.accordion-button:focus{z-index:3;border-color:var(--bs-accordion-btn-focus-border-color);outline:0;box-shadow:var(--bs-accordion-btn-focus-box-shadow)}.accordion-header{margin-bottom:0}.accordion-item{color:var(--bs-accordion-color);background-color:var(--bs-accordion-bg);border:var(--bs-accordion-border-width) solid var(--bs-accordion-border-color)}.accordion-item:first-of-type{border-top-left-radius:var(--bs-accordion-border-radius);border-top-right-radius:var(--bs-accordion-border-radius)}.accordion-item:first-of-type .accordion-button{border-top-left-radius:var(--bs-accordion-inner-border-radius);border-top-right-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:not(:first-of-type){border-top:0}.accordion-item:last-of-type{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-item:last-of-type .accordion-button.collapsed{border-bottom-right-radius:var(--bs-accordion-inner-border-radius);border-bottom-left-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:last-of-type .accordion-collapse{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-body{padding:var(--bs-accordion-body-padding-y) var(--bs-accordion-body-padding-x)}.accordion-flush .accordion-collapse{border-width:0}.accordion-flush .accordion-item{border-right:0;border-left:0;border-radius:0}.accordion-flush .accordion-item:first-child{border-top:0}.accordion-flush .accordion-item:last-child{border-bottom:0}.accordion-flush .accordion-item .accordion-button,.accordion-flush .accordion-item .accordion-button.collapsed{border-radius:0}[data-bs-theme="dark"] .accordion-button::after{--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%236ea8fe'%3e%3cpath 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var(--bs-breadcrumb-padding-x);margin-bottom:var(--bs-breadcrumb-margin-bottom);font-size:var(--bs-breadcrumb-font-size);list-style:none;background-color:var(--bs-breadcrumb-bg);border-radius:var(--bs-breadcrumb-border-radius)}.breadcrumb-item+.breadcrumb-item{padding-left:var(--bs-breadcrumb-item-padding-x)}.breadcrumb-item+.breadcrumb-item::before{float:left;padding-right:var(--bs-breadcrumb-item-padding-x);color:var(--bs-breadcrumb-divider-color);content:var(--bs-breadcrumb-divider, "/") /* rtl: var(--bs-breadcrumb-divider, "/") */}.breadcrumb-item.active{color:var(--bs-breadcrumb-item-active-color)}.pagination{--bs-pagination-padding-x: .75rem;--bs-pagination-padding-y: .375rem;--bs-pagination-font-size:1rem;--bs-pagination-color: var(--bs-link-color);--bs-pagination-bg: var(--bs-body-bg);--bs-pagination-border-width: var(--bs-border-width);--bs-pagination-border-color: var(--bs-border-color);--bs-pagination-border-radius: var(--bs-border-radius);--bs-pagination-hover-color: var(--bs-link-hover-color);--bs-pagination-hover-bg: var(--bs-tertiary-bg);--bs-pagination-hover-border-color: var(--bs-border-color);--bs-pagination-focus-color: var(--bs-link-hover-color);--bs-pagination-focus-bg: var(--bs-secondary-bg);--bs-pagination-focus-box-shadow: 0 0 0 .25rem rgba(13,110,253,0.25);--bs-pagination-active-color: #fff;--bs-pagination-active-bg: #0d6efd;--bs-pagination-active-border-color: #0d6efd;--bs-pagination-disabled-color: var(--bs-secondary-color);--bs-pagination-disabled-bg: var(--bs-secondary-bg);--bs-pagination-disabled-border-color: var(--bs-border-color);display:flex;display:-webkit-flex;padding-left:0;list-style:none}.page-link{position:relative;display:block;padding:var(--bs-pagination-padding-y) var(--bs-pagination-padding-x);font-size:var(--bs-pagination-font-size);color:var(--bs-pagination-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-pagination-bg);border:var(--bs-pagination-border-width) solid var(--bs-pagination-border-color);transition:color 0.15s ease-in-out,background-color 0.15s ease-in-out,border-color 0.15s ease-in-out,box-shadow 0.15s ease-in-out}@media (prefers-reduced-motion: reduce){.page-link{transition:none}}.page-link:hover{z-index:2;color:var(--bs-pagination-hover-color);background-color:var(--bs-pagination-hover-bg);border-color:var(--bs-pagination-hover-border-color)}.page-link:focus{z-index:3;color:var(--bs-pagination-focus-color);background-color:var(--bs-pagination-focus-bg);outline:0;box-shadow:var(--bs-pagination-focus-box-shadow)}.page-link.active,.active>.page-link{z-index:3;color:var(--bs-pagination-active-color);background-color:var(--bs-pagination-active-bg);border-color:var(--bs-pagination-active-border-color)}.page-link.disabled,.disabled>.page-link{color:var(--bs-pagination-disabled-color);pointer-events:none;background-color:var(--bs-pagination-disabled-bg);border-color:var(--bs-pagination-disabled-border-color)}.page-item:not(:first-child) .page-link{margin-left:calc(var(--bs-border-width) * -1)}.page-item:first-child .page-link{border-top-left-radius:var(--bs-pagination-border-radius);border-bottom-left-radius:var(--bs-pagination-border-radius)}.page-item:last-child .page-link{border-top-right-radius:var(--bs-pagination-border-radius);border-bottom-right-radius:var(--bs-pagination-border-radius)}.pagination-lg{--bs-pagination-padding-x: 1.5rem;--bs-pagination-padding-y: .75rem;--bs-pagination-font-size:1.25rem;--bs-pagination-border-radius: var(--bs-border-radius-lg)}.pagination-sm{--bs-pagination-padding-x: .5rem;--bs-pagination-padding-y: .25rem;--bs-pagination-font-size:.875rem;--bs-pagination-border-radius: var(--bs-border-radius-sm)}.badge{--bs-badge-padding-x: .65em;--bs-badge-padding-y: .35em;--bs-badge-font-size:.75em;--bs-badge-font-weight: 700;--bs-badge-color: #fff;--bs-badge-border-radius: var(--bs-border-radius);display:inline-block;padding:var(--bs-badge-padding-y) var(--bs-badge-padding-x);font-size:var(--bs-badge-font-size);font-weight:var(--bs-badge-font-weight);line-height:1;color:var(--bs-badge-color);text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:var(--bs-badge-border-radius)}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.alert{--bs-alert-bg: transparent;--bs-alert-padding-x: 1rem;--bs-alert-padding-y: 1rem;--bs-alert-margin-bottom: 1rem;--bs-alert-color: inherit;--bs-alert-border-color: transparent;--bs-alert-border: var(--bs-border-width) solid var(--bs-alert-border-color);--bs-alert-border-radius: var(--bs-border-radius);--bs-alert-link-color: inherit;position:relative;padding:var(--bs-alert-padding-y) var(--bs-alert-padding-x);margin-bottom:var(--bs-alert-margin-bottom);color:var(--bs-alert-color);background-color:var(--bs-alert-bg);border:var(--bs-alert-border);border-radius:var(--bs-alert-border-radius)}.alert-heading{color:inherit}.alert-link{font-weight:700;color:var(--bs-alert-link-color)}.alert-dismissible{padding-right:3rem}.alert-dismissible .btn-close{position:absolute;top:0;right:0;z-index:2;padding:1.25rem 1rem}.alert-default{--bs-alert-color: var(--bs-default-text-emphasis);--bs-alert-bg: var(--bs-default-bg-subtle);--bs-alert-border-color: var(--bs-default-border-subtle);--bs-alert-link-color: var(--bs-default-text-emphasis)}.alert-primary{--bs-alert-color: var(--bs-primary-text-emphasis);--bs-alert-bg: var(--bs-primary-bg-subtle);--bs-alert-border-color: var(--bs-primary-border-subtle);--bs-alert-link-color: var(--bs-primary-text-emphasis)}.alert-secondary{--bs-alert-color: var(--bs-secondary-text-emphasis);--bs-alert-bg: var(--bs-secondary-bg-subtle);--bs-alert-border-color: var(--bs-secondary-border-subtle);--bs-alert-link-color: var(--bs-secondary-text-emphasis)}.alert-success{--bs-alert-color: var(--bs-success-text-emphasis);--bs-alert-bg: var(--bs-success-bg-subtle);--bs-alert-border-color: var(--bs-success-border-subtle);--bs-alert-link-color: var(--bs-success-text-emphasis)}.alert-info{--bs-alert-color: var(--bs-info-text-emphasis);--bs-alert-bg: var(--bs-info-bg-subtle);--bs-alert-border-color: var(--bs-info-border-subtle);--bs-alert-link-color: var(--bs-info-text-emphasis)}.alert-warning{--bs-alert-color: var(--bs-warning-text-emphasis);--bs-alert-bg: var(--bs-warning-bg-subtle);--bs-alert-border-color: var(--bs-warning-border-subtle);--bs-alert-link-color: var(--bs-warning-text-emphasis)}.alert-danger{--bs-alert-color: var(--bs-danger-text-emphasis);--bs-alert-bg: var(--bs-danger-bg-subtle);--bs-alert-border-color: var(--bs-danger-border-subtle);--bs-alert-link-color: var(--bs-danger-text-emphasis)}.alert-light{--bs-alert-color: var(--bs-light-text-emphasis);--bs-alert-bg: var(--bs-light-bg-subtle);--bs-alert-border-color: var(--bs-light-border-subtle);--bs-alert-link-color: var(--bs-light-text-emphasis)}.alert-dark{--bs-alert-color: var(--bs-dark-text-emphasis);--bs-alert-bg: var(--bs-dark-bg-subtle);--bs-alert-border-color: var(--bs-dark-border-subtle);--bs-alert-link-color: var(--bs-dark-text-emphasis)}@keyframes progress-bar-stripes{0%{background-position-x:1rem}}.progress,.progress-stacked{--bs-progress-height: 1rem;--bs-progress-font-size:.75rem;--bs-progress-bg: var(--bs-secondary-bg);--bs-progress-border-radius: var(--bs-border-radius);--bs-progress-box-shadow: var(--bs-box-shadow-inset);--bs-progress-bar-color: #fff;--bs-progress-bar-bg: #0d6efd;--bs-progress-bar-transition: width 0.6s ease;display:flex;display:-webkit-flex;height:var(--bs-progress-height);overflow:hidden;font-size:var(--bs-progress-font-size);background-color:var(--bs-progress-bg);border-radius:var(--bs-progress-border-radius)}.progress-bar{display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;justify-content:center;-webkit-justify-content:center;overflow:hidden;color:var(--bs-progress-bar-color);text-align:center;white-space:nowrap;background-color:var(--bs-progress-bar-bg);transition:var(--bs-progress-bar-transition)}@media (prefers-reduced-motion: reduce){.progress-bar{transition:none}}.progress-bar-striped{background-image:linear-gradient(45deg, rgba(255,255,255,0.15) 25%, transparent 25%, transparent 50%, rgba(255,255,255,0.15) 50%, rgba(255,255,255,0.15) 75%, transparent 75%, transparent);background-size:var(--bs-progress-height) var(--bs-progress-height)}.progress-stacked>.progress{overflow:visible}.progress-stacked>.progress>.progress-bar{width:100%}.progress-bar-animated{animation:1s linear infinite progress-bar-stripes}@media (prefers-reduced-motion: reduce){.progress-bar-animated{animation:none}}.list-group{--bs-list-group-color: var(--bs-body-color);--bs-list-group-bg: var(--bs-body-bg);--bs-list-group-border-color: var(--bs-border-color);--bs-list-group-border-width: var(--bs-border-width);--bs-list-group-border-radius: var(--bs-border-radius);--bs-list-group-item-padding-x: 1rem;--bs-list-group-item-padding-y: .5rem;--bs-list-group-action-color: var(--bs-secondary-color);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-tertiary-bg);--bs-list-group-action-active-color: var(--bs-body-color);--bs-list-group-action-active-bg: var(--bs-secondary-bg);--bs-list-group-disabled-color: var(--bs-secondary-color);--bs-list-group-disabled-bg: var(--bs-body-bg);--bs-list-group-active-color: #fff;--bs-list-group-active-bg: #0d6efd;--bs-list-group-active-border-color: #0d6efd;display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;padding-left:0;margin-bottom:0;border-radius:var(--bs-list-group-border-radius)}.list-group-numbered{list-style-type:none;counter-reset:section}.list-group-numbered>.list-group-item::before{content:counters(section, ".") ". ";counter-increment:section}.list-group-item-action{width:100%;color:var(--bs-list-group-action-color);text-align:inherit}.list-group-item-action:hover,.list-group-item-action:focus{z-index:1;color:var(--bs-list-group-action-hover-color);text-decoration:none;background-color:var(--bs-list-group-action-hover-bg)}.list-group-item-action:active{color:var(--bs-list-group-action-active-color);background-color:var(--bs-list-group-action-active-bg)}.list-group-item{position:relative;display:block;padding:var(--bs-list-group-item-padding-y) var(--bs-list-group-item-padding-x);color:var(--bs-list-group-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-list-group-bg);border:var(--bs-list-group-border-width) solid var(--bs-list-group-border-color)}.list-group-item:first-child{border-top-left-radius:inherit;border-top-right-radius:inherit}.list-group-item:last-child{border-bottom-right-radius:inherit;border-bottom-left-radius:inherit}.list-group-item.disabled,.list-group-item:disabled{color:var(--bs-list-group-disabled-color);pointer-events:none;background-color:var(--bs-list-group-disabled-bg)}.list-group-item.active{z-index:2;color:var(--bs-list-group-active-color);background-color:var(--bs-list-group-active-bg);border-color:var(--bs-list-group-active-border-color)}.list-group-item+.list-group-item{border-top-width:0}.list-group-item+.list-group-item.active{margin-top:calc(-1 * var(--bs-list-group-border-width));border-top-width:var(--bs-list-group-border-width)}.list-group-horizontal{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal>.list-group-item.active{margin-top:0}.list-group-horizontal>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}@media (min-width: 576px){.list-group-horizontal-sm{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-sm>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-sm>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-sm>.list-group-item.active{margin-top:0}.list-group-horizontal-sm>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-sm>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 768px){.list-group-horizontal-md{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-md>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-md>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-md>.list-group-item.active{margin-top:0}.list-group-horizontal-md>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-md>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 992px){.list-group-horizontal-lg{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-lg>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-lg>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-lg>.list-group-item.active{margin-top:0}.list-group-horizontal-lg>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-lg>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 1200px){.list-group-horizontal-xl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xl>.list-group-item.active{margin-top:0}.list-group-horizontal-xl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xl>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 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var(--bs-list-group-border-width)}.list-group-flush>.list-group-item:last-child{border-bottom-width:0}.list-group-item-default{--bs-list-group-color: var(--bs-default-text-emphasis);--bs-list-group-bg: var(--bs-default-bg-subtle);--bs-list-group-border-color: var(--bs-default-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-default-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-default-border-subtle);--bs-list-group-active-color: var(--bs-default-bg-subtle);--bs-list-group-active-bg: var(--bs-default-text-emphasis);--bs-list-group-active-border-color: var(--bs-default-text-emphasis)}.list-group-item-primary{--bs-list-group-color: var(--bs-primary-text-emphasis);--bs-list-group-bg: var(--bs-primary-bg-subtle);--bs-list-group-border-color: var(--bs-primary-border-subtle);--bs-list-group-action-hover-color: 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var(--bs-secondary-text-emphasis);--bs-list-group-active-border-color: var(--bs-secondary-text-emphasis)}.list-group-item-success{--bs-list-group-color: var(--bs-success-text-emphasis);--bs-list-group-bg: var(--bs-success-bg-subtle);--bs-list-group-border-color: var(--bs-success-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-success-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-success-border-subtle);--bs-list-group-active-color: var(--bs-success-bg-subtle);--bs-list-group-active-bg: var(--bs-success-text-emphasis);--bs-list-group-active-border-color: var(--bs-success-text-emphasis)}.list-group-item-info{--bs-list-group-color: var(--bs-info-text-emphasis);--bs-list-group-bg: var(--bs-info-bg-subtle);--bs-list-group-border-color: var(--bs-info-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-info-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-info-border-subtle);--bs-list-group-active-color: var(--bs-info-bg-subtle);--bs-list-group-active-bg: var(--bs-info-text-emphasis);--bs-list-group-active-border-color: var(--bs-info-text-emphasis)}.list-group-item-warning{--bs-list-group-color: var(--bs-warning-text-emphasis);--bs-list-group-bg: var(--bs-warning-bg-subtle);--bs-list-group-border-color: var(--bs-warning-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-warning-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-warning-border-subtle);--bs-list-group-active-color: var(--bs-warning-bg-subtle);--bs-list-group-active-bg: var(--bs-warning-text-emphasis);--bs-list-group-active-border-color: var(--bs-warning-text-emphasis)}.list-group-item-danger{--bs-list-group-color: var(--bs-danger-text-emphasis);--bs-list-group-bg: var(--bs-danger-bg-subtle);--bs-list-group-border-color: var(--bs-danger-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-danger-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-danger-border-subtle);--bs-list-group-active-color: var(--bs-danger-bg-subtle);--bs-list-group-active-bg: var(--bs-danger-text-emphasis);--bs-list-group-active-border-color: var(--bs-danger-text-emphasis)}.list-group-item-light{--bs-list-group-color: var(--bs-light-text-emphasis);--bs-list-group-bg: var(--bs-light-bg-subtle);--bs-list-group-border-color: var(--bs-light-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-light-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-light-border-subtle);--bs-list-group-active-color: var(--bs-light-bg-subtle);--bs-list-group-active-bg: var(--bs-light-text-emphasis);--bs-list-group-active-border-color: var(--bs-light-text-emphasis)}.list-group-item-dark{--bs-list-group-color: var(--bs-dark-text-emphasis);--bs-list-group-bg: var(--bs-dark-bg-subtle);--bs-list-group-border-color: var(--bs-dark-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-dark-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-dark-border-subtle);--bs-list-group-active-color: var(--bs-dark-bg-subtle);--bs-list-group-active-bg: var(--bs-dark-text-emphasis);--bs-list-group-active-border-color: var(--bs-dark-text-emphasis)}.btn-close{--bs-btn-close-color: #000;--bs-btn-close-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' 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-1)}.btn-group-vertical>.btn:not(:last-child):not(.dropdown-toggle),.btn-group-vertical>.btn-group:not(:last-child)>.btn{border-bottom-right-radius:0;border-bottom-left-radius:0}.btn-group-vertical>.btn~.btn,.btn-group-vertical>.btn-group:not(:first-child)>.btn{border-top-left-radius:0;border-top-right-radius:0}.nav{--bs-nav-link-padding-x: 1rem;--bs-nav-link-padding-y: .5rem;--bs-nav-link-font-weight: ;--bs-nav-link-color: var(--bs-link-color);--bs-nav-link-hover-color: var(--bs-link-hover-color);--bs-nav-link-disabled-color: var(--bs-secondary-color);display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;padding-left:0;margin-bottom:0;list-style:none}.nav-link{display:block;padding:var(--bs-nav-link-padding-y) 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var(--bs-border-color);--bs-nav-tabs-link-active-color: var(--bs-emphasis-color);--bs-nav-tabs-link-active-bg: var(--bs-body-bg);--bs-nav-tabs-link-active-border-color: var(--bs-border-color) var(--bs-border-color) var(--bs-body-bg);border-bottom:var(--bs-nav-tabs-border-width) solid var(--bs-nav-tabs-border-color)}.nav-tabs .nav-link{margin-bottom:calc(-1 * var(--bs-nav-tabs-border-width));border:var(--bs-nav-tabs-border-width) solid transparent;border-top-left-radius:var(--bs-nav-tabs-border-radius);border-top-right-radius:var(--bs-nav-tabs-border-radius)}.nav-tabs .nav-link:hover,.nav-tabs .nav-link:focus{isolation:isolate;border-color:var(--bs-nav-tabs-link-hover-border-color)}.nav-tabs .nav-link.active,.nav-tabs .nav-item.show .nav-link{color:var(--bs-nav-tabs-link-active-color);background-color:var(--bs-nav-tabs-link-active-bg);border-color:var(--bs-nav-tabs-link-active-border-color)}.nav-tabs .dropdown-menu{margin-top:calc(-1 * 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.show>.nav-link{font-weight:700;color:var(--bs-nav-underline-link-active-color);border-bottom-color:currentcolor}.nav-fill>.nav-link,.nav-fill .nav-item{flex:1 1 auto;-webkit-flex:1 1 auto;text-align:center}.nav-justified>.nav-link,.nav-justified .nav-item{flex-basis:0;-webkit-flex-basis:0;flex-grow:1;-webkit-flex-grow:1;text-align:center}.nav-fill .nav-item .nav-link,.nav-justified .nav-item .nav-link{width:100%}.tab-content>.tab-pane{display:none}.tab-content>.active{display:block}.navbar{--bs-navbar-padding-x: 0;--bs-navbar-padding-y: .5rem;--bs-navbar-color: rgba(var(--bs-emphasis-color-rgb), 0.65);--bs-navbar-hover-color: rgba(var(--bs-emphasis-color-rgb), 0.8);--bs-navbar-disabled-color: rgba(var(--bs-emphasis-color-rgb), 0.3);--bs-navbar-active-color: rgba(var(--bs-emphasis-color-rgb), 1);--bs-navbar-brand-padding-y: .3125rem;--bs-navbar-brand-margin-end: 1rem;--bs-navbar-brand-font-size: 1.25rem;--bs-navbar-brand-color: rgba(var(--bs-emphasis-color-rgb), 1);--bs-navbar-brand-hover-color: rgba(var(--bs-emphasis-color-rgb), 1);--bs-navbar-nav-link-padding-x: .5rem;--bs-navbar-toggler-padding-y: .25rem;--bs-navbar-toggler-padding-x: .75rem;--bs-navbar-toggler-font-size: 1.25rem;--bs-navbar-toggler-icon-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 30 30'%3e%3cpath stroke='rgba%2833,37,41,0.75%29' stroke-linecap='round' stroke-miterlimit='10' stroke-width='2' d='M4 7h22M4 15h22M4 23h22'/%3e%3c/svg%3e");--bs-navbar-toggler-border-color: rgba(var(--bs-emphasis-color-rgb), 0.15);--bs-navbar-toggler-border-radius: var(--bs-border-radius);--bs-navbar-toggler-focus-width: .25rem;--bs-navbar-toggler-transition: box-shadow 0.15s ease-in-out;position:relative;display:flex;display:-webkit-flex;flex-wrap:wrap;-webkit-flex-wrap:wrap;align-items:center;-webkit-align-items:center;justify-content:space-between;-webkit-justify-content:space-between;padding:var(--bs-navbar-padding-y) 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.navbar-nav{flex-direction:row;-webkit-flex-direction:row}.navbar-expand-md .navbar-nav .dropdown-menu{position:absolute}.navbar-expand-md .navbar-nav .nav-link{padding-right:var(--bs-navbar-nav-link-padding-x);padding-left:var(--bs-navbar-nav-link-padding-x)}.navbar-expand-md .navbar-nav-scroll{overflow:visible}.navbar-expand-md .navbar-collapse{display:flex !important;display:-webkit-flex !important;flex-basis:auto;-webkit-flex-basis:auto}.navbar-expand-md .navbar-toggler{display:none}.navbar-expand-md .offcanvas{position:static;z-index:auto;flex-grow:1;-webkit-flex-grow:1;width:auto !important;height:auto !important;visibility:visible !important;background-color:transparent !important;border:0 !important;transform:none !important;transition:none}.navbar-expand-md .offcanvas .offcanvas-header{display:none}.navbar-expand-md .offcanvas .offcanvas-body{display:flex;display:-webkit-flex;flex-grow:0;-webkit-flex-grow:0;padding:0;overflow-y:visible}}@media (min-width: 992px){.navbar-expand-lg{flex-wrap:nowrap;-webkit-flex-wrap:nowrap;justify-content:flex-start;-webkit-justify-content:flex-start}.navbar-expand-lg .navbar-nav{flex-direction:row;-webkit-flex-direction:row}.navbar-expand-lg .navbar-nav .dropdown-menu{position:absolute}.navbar-expand-lg .navbar-nav .nav-link{padding-right:var(--bs-navbar-nav-link-padding-x);padding-left:var(--bs-navbar-nav-link-padding-x)}.navbar-expand-lg .navbar-nav-scroll{overflow:visible}.navbar-expand-lg .navbar-collapse{display:flex !important;display:-webkit-flex !important;flex-basis:auto;-webkit-flex-basis:auto}.navbar-expand-lg .navbar-toggler{display:none}.navbar-expand-lg .offcanvas{position:static;z-index:auto;flex-grow:1;-webkit-flex-grow:1;width:auto !important;height:auto !important;visibility:visible !important;background-color:transparent !important;border:0 !important;transform:none !important;transition:none}.navbar-expand-lg .offcanvas .offcanvas-header{display:none}.navbar-expand-lg .offcanvas 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.offcanvas{position:static;z-index:auto;flex-grow:1;-webkit-flex-grow:1;width:auto !important;height:auto !important;visibility:visible !important;background-color:transparent !important;border:0 !important;transform:none !important;transition:none}.navbar-expand-xxl .offcanvas .offcanvas-header{display:none}.navbar-expand-xxl .offcanvas .offcanvas-body{display:flex;display:-webkit-flex;flex-grow:0;-webkit-flex-grow:0;padding:0;overflow-y:visible}}.navbar-expand{flex-wrap:nowrap;-webkit-flex-wrap:nowrap;justify-content:flex-start;-webkit-justify-content:flex-start}.navbar-expand .navbar-nav{flex-direction:row;-webkit-flex-direction:row}.navbar-expand .navbar-nav .dropdown-menu{position:absolute}.navbar-expand .navbar-nav .nav-link{padding-right:var(--bs-navbar-nav-link-padding-x);padding-left:var(--bs-navbar-nav-link-padding-x)}.navbar-expand .navbar-nav-scroll{overflow:visible}.navbar-expand .navbar-collapse{display:flex !important;display:-webkit-flex 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wrap;-webkit-flex-flow:row wrap}.card-group>.card{flex:1 0 0%;-webkit-flex:1 0 0%;margin-bottom:0}.card-group>.card+.card{margin-left:0;border-left:0}.card-group>.card:not(:last-child){border-top-right-radius:0;border-bottom-right-radius:0}.card-group>.card:not(:last-child) .card-img-top,.card-group>.card:not(:last-child) .card-header{border-top-right-radius:0}.card-group>.card:not(:last-child) .card-img-bottom,.card-group>.card:not(:last-child) .card-footer{border-bottom-right-radius:0}.card-group>.card:not(:first-child){border-top-left-radius:0;border-bottom-left-radius:0}.card-group>.card:not(:first-child) .card-img-top,.card-group>.card:not(:first-child) .card-header{border-top-left-radius:0}.card-group>.card:not(:first-child) .card-img-bottom,.card-group>.card:not(:first-child) .card-footer{border-bottom-left-radius:0}}.accordion{--bs-accordion-color: var(--bs-body-color);--bs-accordion-bg: var(--bs-body-bg);--bs-accordion-transition: color 0.15s ease-in-out,background-color 0.15s ease-in-out,border-color 0.15s ease-in-out,box-shadow 0.15s ease-in-out,border-radius 0.15s ease;--bs-accordion-border-color: var(--bs-border-color);--bs-accordion-border-width: var(--bs-border-width);--bs-accordion-border-radius: var(--bs-border-radius);--bs-accordion-inner-border-radius: calc(var(--bs-border-radius) - (var(--bs-border-width)));--bs-accordion-btn-padding-x: 1.25rem;--bs-accordion-btn-padding-y: 1rem;--bs-accordion-btn-color: var(--bs-body-color);--bs-accordion-btn-bg: var(--bs-accordion-bg);--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23212529'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-icon-width: 1.25rem;--bs-accordion-btn-icon-transform: rotate(-180deg);--bs-accordion-btn-icon-transition: transform 0.2s ease-in-out;--bs-accordion-btn-active-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%23052c65'%3e%3cpath fill-rule='evenodd' d='M1.646 4.646a.5.5 0 0 1 .708 0L8 10.293l5.646-5.647a.5.5 0 0 1 .708.708l-6 6a.5.5 0 0 1-.708 0l-6-6a.5.5 0 0 1 0-.708z'/%3e%3c/svg%3e");--bs-accordion-btn-focus-border-color: #86b7fe;--bs-accordion-btn-focus-box-shadow: 0 0 0 .25rem rgba(13,110,253,0.25);--bs-accordion-body-padding-x: 1.25rem;--bs-accordion-body-padding-y: 1rem;--bs-accordion-active-color: var(--bs-primary-text-emphasis);--bs-accordion-active-bg: var(--bs-primary-bg-subtle)}.accordion-button{position:relative;display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;width:100%;padding:var(--bs-accordion-btn-padding-y) var(--bs-accordion-btn-padding-x);font-size:1rem;color:var(--bs-accordion-btn-color);text-align:left;background-color:var(--bs-accordion-btn-bg);border:0;border-radius:0;overflow-anchor:none;transition:var(--bs-accordion-transition)}@media 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reduce){.accordion-button::after{transition:none}}.accordion-button:hover{z-index:2}.accordion-button:focus{z-index:3;border-color:var(--bs-accordion-btn-focus-border-color);outline:0;box-shadow:var(--bs-accordion-btn-focus-box-shadow)}.accordion-header{margin-bottom:0}.accordion-item{color:var(--bs-accordion-color);background-color:var(--bs-accordion-bg);border:var(--bs-accordion-border-width) solid var(--bs-accordion-border-color)}.accordion-item:first-of-type{border-top-left-radius:var(--bs-accordion-border-radius);border-top-right-radius:var(--bs-accordion-border-radius)}.accordion-item:first-of-type .accordion-button{border-top-left-radius:var(--bs-accordion-inner-border-radius);border-top-right-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:not(:first-of-type){border-top:0}.accordion-item:last-of-type{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-item:last-of-type .accordion-button.collapsed{border-bottom-right-radius:var(--bs-accordion-inner-border-radius);border-bottom-left-radius:var(--bs-accordion-inner-border-radius)}.accordion-item:last-of-type .accordion-collapse{border-bottom-right-radius:var(--bs-accordion-border-radius);border-bottom-left-radius:var(--bs-accordion-border-radius)}.accordion-body{padding:var(--bs-accordion-body-padding-y) var(--bs-accordion-body-padding-x)}.accordion-flush .accordion-collapse{border-width:0}.accordion-flush .accordion-item{border-right:0;border-left:0;border-radius:0}.accordion-flush .accordion-item:first-child{border-top:0}.accordion-flush .accordion-item:last-child{border-bottom:0}.accordion-flush .accordion-item .accordion-button,.accordion-flush .accordion-item .accordion-button.collapsed{border-radius:0}[data-bs-theme="dark"] .accordion-button::after{--bs-accordion-btn-icon: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' viewBox='0 0 16 16' fill='%236ea8fe'%3e%3cpath 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var(--bs-breadcrumb-padding-x);margin-bottom:var(--bs-breadcrumb-margin-bottom);font-size:var(--bs-breadcrumb-font-size);list-style:none;background-color:var(--bs-breadcrumb-bg);border-radius:var(--bs-breadcrumb-border-radius)}.breadcrumb-item+.breadcrumb-item{padding-left:var(--bs-breadcrumb-item-padding-x)}.breadcrumb-item+.breadcrumb-item::before{float:left;padding-right:var(--bs-breadcrumb-item-padding-x);color:var(--bs-breadcrumb-divider-color);content:var(--bs-breadcrumb-divider, "/") /* rtl: var(--bs-breadcrumb-divider, "/") */}.breadcrumb-item.active{color:var(--bs-breadcrumb-item-active-color)}.pagination{--bs-pagination-padding-x: .75rem;--bs-pagination-padding-y: .375rem;--bs-pagination-font-size:1rem;--bs-pagination-color: var(--bs-link-color);--bs-pagination-bg: var(--bs-body-bg);--bs-pagination-border-width: var(--bs-border-width);--bs-pagination-border-color: var(--bs-border-color);--bs-pagination-border-radius: var(--bs-border-radius);--bs-pagination-hover-color: 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var(--bs-pagination-padding-x);font-size:var(--bs-pagination-font-size);color:var(--bs-pagination-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-pagination-bg);border:var(--bs-pagination-border-width) solid var(--bs-pagination-border-color);transition:color 0.15s ease-in-out,background-color 0.15s ease-in-out,border-color 0.15s ease-in-out,box-shadow 0.15s ease-in-out}@media (prefers-reduced-motion: reduce){.page-link{transition:none}}.page-link:hover{z-index:2;color:var(--bs-pagination-hover-color);background-color:var(--bs-pagination-hover-bg);border-color:var(--bs-pagination-hover-border-color)}.page-link:focus{z-index:3;color:var(--bs-pagination-focus-color);background-color:var(--bs-pagination-focus-bg);outline:0;box-shadow:var(--bs-pagination-focus-box-shadow)}.page-link.active,.active>.page-link{z-index:3;color:var(--bs-pagination-active-color);background-color:var(--bs-pagination-active-bg);border-color:var(--bs-pagination-active-border-color)}.page-link.disabled,.disabled>.page-link{color:var(--bs-pagination-disabled-color);pointer-events:none;background-color:var(--bs-pagination-disabled-bg);border-color:var(--bs-pagination-disabled-border-color)}.page-item:not(:first-child) .page-link{margin-left:calc(var(--bs-border-width) * -1)}.page-item:first-child .page-link{border-top-left-radius:var(--bs-pagination-border-radius);border-bottom-left-radius:var(--bs-pagination-border-radius)}.page-item:last-child .page-link{border-top-right-radius:var(--bs-pagination-border-radius);border-bottom-right-radius:var(--bs-pagination-border-radius)}.pagination-lg{--bs-pagination-padding-x: 1.5rem;--bs-pagination-padding-y: .75rem;--bs-pagination-font-size:1.25rem;--bs-pagination-border-radius: var(--bs-border-radius-lg)}.pagination-sm{--bs-pagination-padding-x: .5rem;--bs-pagination-padding-y: .25rem;--bs-pagination-font-size:.875rem;--bs-pagination-border-radius: var(--bs-border-radius-sm)}.badge{--bs-badge-padding-x: .65em;--bs-badge-padding-y: .35em;--bs-badge-font-size:.75em;--bs-badge-font-weight: 700;--bs-badge-color: #fff;--bs-badge-border-radius: var(--bs-border-radius);display:inline-block;padding:var(--bs-badge-padding-y) var(--bs-badge-padding-x);font-size:var(--bs-badge-font-size);font-weight:var(--bs-badge-font-weight);line-height:1;color:var(--bs-badge-color);text-align:center;white-space:nowrap;vertical-align:baseline;border-radius:var(--bs-badge-border-radius)}.badge:empty{display:none}.btn .badge{position:relative;top:-1px}.alert{--bs-alert-bg: transparent;--bs-alert-padding-x: 1rem;--bs-alert-padding-y: 1rem;--bs-alert-margin-bottom: 1rem;--bs-alert-color: inherit;--bs-alert-border-color: transparent;--bs-alert-border: var(--bs-border-width) solid var(--bs-alert-border-color);--bs-alert-border-radius: var(--bs-border-radius);--bs-alert-link-color: inherit;position:relative;padding:var(--bs-alert-padding-y) var(--bs-alert-padding-x);margin-bottom:var(--bs-alert-margin-bottom);color:var(--bs-alert-color);background-color:var(--bs-alert-bg);border:var(--bs-alert-border);border-radius:var(--bs-alert-border-radius)}.alert-heading{color:inherit}.alert-link{font-weight:700;color:var(--bs-alert-link-color)}.alert-dismissible{padding-right:3rem}.alert-dismissible .btn-close{position:absolute;top:0;right:0;z-index:2;padding:1.25rem 1rem}.alert-default{--bs-alert-color: var(--bs-default-text-emphasis);--bs-alert-bg: var(--bs-default-bg-subtle);--bs-alert-border-color: var(--bs-default-border-subtle);--bs-alert-link-color: var(--bs-default-text-emphasis)}.alert-primary{--bs-alert-color: var(--bs-primary-text-emphasis);--bs-alert-bg: var(--bs-primary-bg-subtle);--bs-alert-border-color: var(--bs-primary-border-subtle);--bs-alert-link-color: var(--bs-primary-text-emphasis)}.alert-secondary{--bs-alert-color: var(--bs-secondary-text-emphasis);--bs-alert-bg: var(--bs-secondary-bg-subtle);--bs-alert-border-color: var(--bs-secondary-border-subtle);--bs-alert-link-color: var(--bs-secondary-text-emphasis)}.alert-success{--bs-alert-color: var(--bs-success-text-emphasis);--bs-alert-bg: var(--bs-success-bg-subtle);--bs-alert-border-color: var(--bs-success-border-subtle);--bs-alert-link-color: var(--bs-success-text-emphasis)}.alert-info{--bs-alert-color: var(--bs-info-text-emphasis);--bs-alert-bg: var(--bs-info-bg-subtle);--bs-alert-border-color: var(--bs-info-border-subtle);--bs-alert-link-color: var(--bs-info-text-emphasis)}.alert-warning{--bs-alert-color: var(--bs-warning-text-emphasis);--bs-alert-bg: var(--bs-warning-bg-subtle);--bs-alert-border-color: var(--bs-warning-border-subtle);--bs-alert-link-color: var(--bs-warning-text-emphasis)}.alert-danger{--bs-alert-color: var(--bs-danger-text-emphasis);--bs-alert-bg: var(--bs-danger-bg-subtle);--bs-alert-border-color: var(--bs-danger-border-subtle);--bs-alert-link-color: var(--bs-danger-text-emphasis)}.alert-light{--bs-alert-color: var(--bs-light-text-emphasis);--bs-alert-bg: var(--bs-light-bg-subtle);--bs-alert-border-color: var(--bs-light-border-subtle);--bs-alert-link-color: var(--bs-light-text-emphasis)}.alert-dark{--bs-alert-color: var(--bs-dark-text-emphasis);--bs-alert-bg: var(--bs-dark-bg-subtle);--bs-alert-border-color: var(--bs-dark-border-subtle);--bs-alert-link-color: var(--bs-dark-text-emphasis)}@keyframes progress-bar-stripes{0%{background-position-x:1rem}}.progress,.progress-stacked{--bs-progress-height: 1rem;--bs-progress-font-size:.75rem;--bs-progress-bg: var(--bs-secondary-bg);--bs-progress-border-radius: var(--bs-border-radius);--bs-progress-box-shadow: var(--bs-box-shadow-inset);--bs-progress-bar-color: #fff;--bs-progress-bar-bg: #0d6efd;--bs-progress-bar-transition: width 0.6s ease;display:flex;display:-webkit-flex;height:var(--bs-progress-height);overflow:hidden;font-size:var(--bs-progress-font-size);background-color:var(--bs-progress-bg);border-radius:var(--bs-progress-border-radius)}.progress-bar{display:flex;display:-webkit-flex;flex-direction:column;-webkit-flex-direction:column;justify-content:center;-webkit-justify-content:center;overflow:hidden;color:var(--bs-progress-bar-color);text-align:center;white-space:nowrap;background-color:var(--bs-progress-bar-bg);transition:var(--bs-progress-bar-transition)}@media (prefers-reduced-motion: reduce){.progress-bar{transition:none}}.progress-bar-striped{background-image:linear-gradient(45deg, rgba(255,255,255,0.15) 25%, transparent 25%, transparent 50%, rgba(255,255,255,0.15) 50%, rgba(255,255,255,0.15) 75%, transparent 75%, transparent);background-size:var(--bs-progress-height) var(--bs-progress-height)}.progress-stacked>.progress{overflow:visible}.progress-stacked>.progress>.progress-bar{width:100%}.progress-bar-animated{animation:1s linear infinite progress-bar-stripes}@media (prefers-reduced-motion: reduce){.progress-bar-animated{animation:none}}.list-group{--bs-list-group-color: var(--bs-body-color);--bs-list-group-bg: var(--bs-body-bg);--bs-list-group-border-color: var(--bs-border-color);--bs-list-group-border-width: var(--bs-border-width);--bs-list-group-border-radius: var(--bs-border-radius);--bs-list-group-item-padding-x: 1rem;--bs-list-group-item-padding-y: .5rem;--bs-list-group-action-color: var(--bs-secondary-color);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-tertiary-bg);--bs-list-group-action-active-color: var(--bs-body-color);--bs-list-group-action-active-bg: var(--bs-secondary-bg);--bs-list-group-disabled-color: var(--bs-secondary-color);--bs-list-group-disabled-bg: 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";counter-increment:section}.list-group-item-action{width:100%;color:var(--bs-list-group-action-color);text-align:inherit}.list-group-item-action:hover,.list-group-item-action:focus{z-index:1;color:var(--bs-list-group-action-hover-color);text-decoration:none;background-color:var(--bs-list-group-action-hover-bg)}.list-group-item-action:active{color:var(--bs-list-group-action-active-color);background-color:var(--bs-list-group-action-active-bg)}.list-group-item{position:relative;display:block;padding:var(--bs-list-group-item-padding-y) var(--bs-list-group-item-padding-x);color:var(--bs-list-group-color);text-decoration:none;-webkit-text-decoration:none;-moz-text-decoration:none;-ms-text-decoration:none;-o-text-decoration:none;background-color:var(--bs-list-group-bg);border:var(--bs-list-group-border-width) solid 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var(--bs-list-group-border-width));border-top-width:var(--bs-list-group-border-width)}.list-group-horizontal{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal>.list-group-item.active{margin-top:0}.list-group-horizontal>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}@media (min-width: 576px){.list-group-horizontal-sm{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-sm>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-sm>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-sm>.list-group-item.active{margin-top:0}.list-group-horizontal-sm>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-sm>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 768px){.list-group-horizontal-md{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-md>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-md>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-md>.list-group-item.active{margin-top:0}.list-group-horizontal-md>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-md>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 992px){.list-group-horizontal-lg{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-lg>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-lg>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-lg>.list-group-item.active{margin-top:0}.list-group-horizontal-lg>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-lg>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 1200px){.list-group-horizontal-xl{flex-direction:row;-webkit-flex-direction:row}.list-group-horizontal-xl>.list-group-item:first-child:not(:last-child){border-bottom-left-radius:var(--bs-list-group-border-radius);border-top-right-radius:0}.list-group-horizontal-xl>.list-group-item:last-child:not(:first-child){border-top-right-radius:var(--bs-list-group-border-radius);border-bottom-left-radius:0}.list-group-horizontal-xl>.list-group-item.active{margin-top:0}.list-group-horizontal-xl>.list-group-item+.list-group-item{border-top-width:var(--bs-list-group-border-width);border-left-width:0}.list-group-horizontal-xl>.list-group-item+.list-group-item.active{margin-left:calc(-1 * var(--bs-list-group-border-width));border-left-width:var(--bs-list-group-border-width)}}@media (min-width: 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var(--bs-list-group-border-width)}.list-group-flush>.list-group-item:last-child{border-bottom-width:0}.list-group-item-default{--bs-list-group-color: var(--bs-default-text-emphasis);--bs-list-group-bg: var(--bs-default-bg-subtle);--bs-list-group-border-color: var(--bs-default-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-default-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-default-border-subtle);--bs-list-group-active-color: var(--bs-default-bg-subtle);--bs-list-group-active-bg: var(--bs-default-text-emphasis);--bs-list-group-active-border-color: var(--bs-default-text-emphasis)}.list-group-item-primary{--bs-list-group-color: var(--bs-primary-text-emphasis);--bs-list-group-bg: var(--bs-primary-bg-subtle);--bs-list-group-border-color: var(--bs-primary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-primary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-primary-border-subtle);--bs-list-group-active-color: var(--bs-primary-bg-subtle);--bs-list-group-active-bg: var(--bs-primary-text-emphasis);--bs-list-group-active-border-color: var(--bs-primary-text-emphasis)}.list-group-item-secondary{--bs-list-group-color: var(--bs-secondary-text-emphasis);--bs-list-group-bg: var(--bs-secondary-bg-subtle);--bs-list-group-border-color: var(--bs-secondary-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-secondary-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-secondary-border-subtle);--bs-list-group-active-color: var(--bs-secondary-bg-subtle);--bs-list-group-active-bg: var(--bs-secondary-text-emphasis);--bs-list-group-active-border-color: var(--bs-secondary-text-emphasis)}.list-group-item-success{--bs-list-group-color: var(--bs-success-text-emphasis);--bs-list-group-bg: var(--bs-success-bg-subtle);--bs-list-group-border-color: var(--bs-success-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-success-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-success-border-subtle);--bs-list-group-active-color: var(--bs-success-bg-subtle);--bs-list-group-active-bg: var(--bs-success-text-emphasis);--bs-list-group-active-border-color: var(--bs-success-text-emphasis)}.list-group-item-info{--bs-list-group-color: var(--bs-info-text-emphasis);--bs-list-group-bg: var(--bs-info-bg-subtle);--bs-list-group-border-color: var(--bs-info-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-info-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-info-border-subtle);--bs-list-group-active-color: var(--bs-info-bg-subtle);--bs-list-group-active-bg: var(--bs-info-text-emphasis);--bs-list-group-active-border-color: var(--bs-info-text-emphasis)}.list-group-item-warning{--bs-list-group-color: var(--bs-warning-text-emphasis);--bs-list-group-bg: var(--bs-warning-bg-subtle);--bs-list-group-border-color: var(--bs-warning-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-warning-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-warning-border-subtle);--bs-list-group-active-color: var(--bs-warning-bg-subtle);--bs-list-group-active-bg: var(--bs-warning-text-emphasis);--bs-list-group-active-border-color: var(--bs-warning-text-emphasis)}.list-group-item-danger{--bs-list-group-color: var(--bs-danger-text-emphasis);--bs-list-group-bg: var(--bs-danger-bg-subtle);--bs-list-group-border-color: var(--bs-danger-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-danger-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-danger-border-subtle);--bs-list-group-active-color: var(--bs-danger-bg-subtle);--bs-list-group-active-bg: var(--bs-danger-text-emphasis);--bs-list-group-active-border-color: var(--bs-danger-text-emphasis)}.list-group-item-light{--bs-list-group-color: var(--bs-light-text-emphasis);--bs-list-group-bg: var(--bs-light-bg-subtle);--bs-list-group-border-color: var(--bs-light-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-light-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-light-border-subtle);--bs-list-group-active-color: var(--bs-light-bg-subtle);--bs-list-group-active-bg: var(--bs-light-text-emphasis);--bs-list-group-active-border-color: var(--bs-light-text-emphasis)}.list-group-item-dark{--bs-list-group-color: var(--bs-dark-text-emphasis);--bs-list-group-bg: var(--bs-dark-bg-subtle);--bs-list-group-border-color: var(--bs-dark-border-subtle);--bs-list-group-action-hover-color: var(--bs-emphasis-color);--bs-list-group-action-hover-bg: var(--bs-dark-border-subtle);--bs-list-group-action-active-color: var(--bs-emphasis-color);--bs-list-group-action-active-bg: var(--bs-dark-border-subtle);--bs-list-group-active-color: var(--bs-dark-bg-subtle);--bs-list-group-active-bg: var(--bs-dark-text-emphasis);--bs-list-group-active-border-color: var(--bs-dark-text-emphasis)}.btn-close{--bs-btn-close-color: #000;--bs-btn-close-bg: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' 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var(--bs-border-width);position:fixed;top:0;left:0;z-index:var(--bs-modal-zindex);display:none;width:100%;height:100%;overflow-x:hidden;overflow-y:auto;outline:0}.modal-dialog{position:relative;width:auto;margin:var(--bs-modal-margin);pointer-events:none}.modal.fade .modal-dialog{transition:transform 0.3s ease-out;transform:translate(0, -50px)}@media (prefers-reduced-motion: reduce){.modal.fade .modal-dialog{transition:none}}.modal.show .modal-dialog{transform:none}.modal.modal-static .modal-dialog{transform:scale(1.02)}.modal-dialog-scrollable{height:calc(100% - var(--bs-modal-margin) * 2)}.modal-dialog-scrollable .modal-content{max-height:100%;overflow:hidden}.modal-dialog-scrollable .modal-body{overflow-y:auto}.modal-dialog-centered{display:flex;display:-webkit-flex;align-items:center;-webkit-align-items:center;min-height:calc(100% - var(--bs-modal-margin) * 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diff --git a/deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js b/deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js
new file mode 100644
index 00000000..c628326a
--- /dev/null
+++ b/deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js
@@ -0,0 +1,5 @@
+/*!
+ * Bootstrap Table of Contents v1.0.1 (http://afeld.github.io/bootstrap-toc/)
+ * Copyright 2015 Aidan Feldman
+ * Licensed under MIT (https://github.com/afeld/bootstrap-toc/blob/gh-pages/LICENSE.md) */
+!function(a){"use strict";window.Toc={helpers:{findOrFilter:function(e,t){var n=e.find(t);return e.filter(t).add(n).filter(":not([data-toc-skip])")},generateUniqueIdBase:function(e){return a(e).text().trim().replace(/\'/gi,"").replace(/[& +$,:;=?@"#{}|^~[`%!'<>\]\.\/\(\)\*\\\n\t\b\v]/g,"-").replace(/-{2,}/g,"-").substring(0,64).replace(/^-+|-+$/gm,"").toLowerCase()||e.tagName.toLowerCase()},generateUniqueId:function(e){for(var t=this.generateUniqueIdBase(e),n=0;;n++){var r=t;if(0<n&&(r+="-"+n),!document.getElementById(r))return r}},generateAnchor:function(e){if(e.id)return e.id;var t=this.generateUniqueId(e);return e.id=t},createNavList:function(){return a('<ul class="nav navbar-nav"></ul>')},createChildNavList:function(e){var t=this.createNavList();return e.append(t),t},generateNavEl:function(e,t){var n=a('<a class="nav-link"></a>');n.attr("href","#"+e),n.text(t);var r=a("<li></li>");return r.append(n),r},generateNavItem:function(e){var t=this.generateAnchor(e),n=a(e),r=n.data("toc-text")||n.text();return this.generateNavEl(t,r)},getTopLevel:function(e){for(var t=1;t<=6;t++){if(1<this.findOrFilter(e,"h"+t).length)return t}return 1},getHeadings:function(e,t){var n="h"+t,r="h"+(t+1);return this.findOrFilter(e,n+","+r)},getNavLevel:function(e){return parseInt(e.tagName.charAt(1),10)},populateNav:function(r,a,e){var i,s=r,c=this;e.each(function(e,t){var n=c.generateNavItem(t);c.getNavLevel(t)===a?s=r:i&&s===r&&(s=c.createChildNavList(i)),s.append(n),i=n})},parseOps:function(e){var t;return(t=e.jquery?{$nav:e}:e).$scope=t.$scope||a(document.body),t}},init:function(e){(e=this.helpers.parseOps(e)).$nav.attr("data-toggle","toc");var t=this.helpers.createChildNavList(e.$nav),n=this.helpers.getTopLevel(e.$scope),r=this.helpers.getHeadings(e.$scope,n);this.helpers.populateNav(t,n,r)}},a(function(){a('nav[data-toggle="toc"]').each(function(e,t){var n=a(t);Toc.init(n)})})}(jQuery);
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diff --git a/deps/clipboard.js-2.0.11/clipboard.min.js b/deps/clipboard.js-2.0.11/clipboard.min.js
new file mode 100644
index 00000000..1103f811
--- /dev/null
+++ b/deps/clipboard.js-2.0.11/clipboard.min.js
@@ -0,0 +1,7 @@
+/*!
+ * clipboard.js v2.0.11
+ * https://clipboardjs.com/
+ *
+ * Licensed MIT © Zeno Rocha
+ */
+!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return b}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),r=n.n(e);function c(t){try{return document.execCommand(t)}catch(t){return}}var a=function(t){t=r()(t);return c("cut"),t};function o(t,e){var n,o,t=(n=t,o="rtl"===document.documentElement.getAttribute("dir"),(t=document.createElement("textarea")).style.fontSize="12pt",t.style.border="0",t.style.padding="0",t.style.margin="0",t.style.position="absolute",t.style[o?"right":"left"]="-9999px",o=window.pageYOffset||document.documentElement.scrollTop,t.style.top="".concat(o,"px"),t.setAttribute("readonly",""),t.value=n,t);return e.container.appendChild(t),e=r()(t),c("copy"),t.remove(),e}var f=function(t){var e=1<arguments.length&&void 0!==arguments[1]?arguments[1]:{container:document.body},n="";return"string"==typeof t?n=o(t,e):t instanceof HTMLInputElement&&!["text","search","url","tel","password"].includes(null==t?void 0:t.type)?n=o(t.value,e):(n=r()(t),c("copy")),n};function l(t){return(l="function"==typeof Symbol&&"symbol"==typeof Symbol.iterator?function(t){return typeof t}:function(t){return t&&"function"==typeof Symbol&&t.constructor===Symbol&&t!==Symbol.prototype?"symbol":typeof t})(t)}var s=function(){var t=0<arguments.length&&void 0!==arguments[0]?arguments[0]:{},e=t.action,n=void 0===e?"copy":e,o=t.container,e=t.target,t=t.text;if("copy"!==n&&"cut"!==n)throw new Error('Invalid "action" value, use either "copy" or "cut"');if(void 0!==e){if(!e||"object"!==l(e)||1!==e.nodeType)throw new Error('Invalid "target" value, use a valid Element');if("copy"===n&&e.hasAttribute("disabled"))throw new Error('Invalid "target" attribute. 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diff --git a/deps/data-deps.txt b/deps/data-deps.txt
index 693b82d1..8aa49e21 100644
--- a/deps/data-deps.txt
+++ b/deps/data-deps.txt
@@ -2,3 +2,12 @@
 <meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no" />
 <link href="deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet" />
 <script src="deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script>
+<link href="deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet" />
+<link href="deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet" />
+<script src="deps/headroom-0.11.0/headroom.min.js"></script>
+<script src="deps/headroom-0.11.0/jQuery.headroom.min.js"></script>
+<script src="deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script>
+<script src="deps/clipboard.js-2.0.11/clipboard.min.js"></script>
+<script src="deps/search-1.0.0/autocomplete.jquery.min.js"></script>
+<script src="deps/search-1.0.0/fuse.min.js"></script>
+<script src="deps/search-1.0.0/mark.min.js"></script>
diff --git a/deps/font-awesome-6.4.2/css/all.css b/deps/font-awesome-6.4.2/css/all.css
new file mode 100644
index 00000000..bdb6e3ae
--- /dev/null
+++ b/deps/font-awesome-6.4.2/css/all.css
@@ -0,0 +1,7968 @@
+/*!
+ * Font Awesome Free 6.4.2 by @fontawesome - https://fontawesome.com
+ * License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License)
+ * Copyright 2023 Fonticons, Inc.
+ */
+.fa {
+  font-family: var(--fa-style-family, "Font Awesome 6 Free");
+  font-weight: var(--fa-style, 900); }
+
+.fa,
+.fa-classic,
+.fa-sharp,
+.fas,
+.fa-solid,
+.far,
+.fa-regular,
+.fab,
+.fa-brands {
+  -moz-osx-font-smoothing: grayscale;
+  -webkit-font-smoothing: antialiased;
+  display: var(--fa-display, inline-block);
+  font-style: normal;
+  font-variant: normal;
+  line-height: 1;
+  text-rendering: auto; }
+
+.fas,
+.fa-classic,
+.fa-solid,
+.far,
+.fa-regular {
+  font-family: 'Font Awesome 6 Free'; }
+
+.fab,
+.fa-brands {
+  font-family: 'Font Awesome 6 Brands'; }
+
+.fa-1x {
+  font-size: 1em; }
+
+.fa-2x {
+  font-size: 2em; }
+
+.fa-3x {
+  font-size: 3em; }
+
+.fa-4x {
+  font-size: 4em; }
+
+.fa-5x {
+  font-size: 5em; }
+
+.fa-6x {
+  font-size: 6em; }
+
+.fa-7x {
+  font-size: 7em; }
+
+.fa-8x {
+  font-size: 8em; }
+
+.fa-9x {
+  font-size: 9em; }
+
+.fa-10x {
+  font-size: 10em; }
+
+.fa-2xs {
+  font-size: 0.625em;
+  line-height: 0.1em;
+  vertical-align: 0.225em; }
+
+.fa-xs {
+  font-size: 0.75em;
+  line-height: 0.08333em;
+  vertical-align: 0.125em; }
+
+.fa-sm {
+  font-size: 0.875em;
+  line-height: 0.07143em;
+  vertical-align: 0.05357em; }
+
+.fa-lg {
+  font-size: 1.25em;
+  line-height: 0.05em;
+  vertical-align: -0.075em; }
+
+.fa-xl {
+  font-size: 1.5em;
+  line-height: 0.04167em;
+  vertical-align: -0.125em; }
+
+.fa-2xl {
+  font-size: 2em;
+  line-height: 0.03125em;
+  vertical-align: -0.1875em; }
+
+.fa-fw {
+  text-align: center;
+  width: 1.25em; }
+
+.fa-ul {
+  list-style-type: none;
+  margin-left: var(--fa-li-margin, 2.5em);
+  padding-left: 0; }
+  .fa-ul > li {
+    position: relative; }
+
+.fa-li {
+  left: calc(var(--fa-li-width, 2em) * -1);
+  position: absolute;
+  text-align: center;
+  width: var(--fa-li-width, 2em);
+  line-height: inherit; }
+
+.fa-border {
+  border-color: var(--fa-border-color, #eee);
+  border-radius: var(--fa-border-radius, 0.1em);
+  border-style: var(--fa-border-style, solid);
+  border-width: var(--fa-border-width, 0.08em);
+  padding: var(--fa-border-padding, 0.2em 0.25em 0.15em); }
+
+.fa-pull-left {
+  float: left;
+  margin-right: var(--fa-pull-margin, 0.3em); }
+
+.fa-pull-right {
+  float: right;
+  margin-left: var(--fa-pull-margin, 0.3em); }
+
+.fa-beat {
+  -webkit-animation-name: fa-beat;
+          animation-name: fa-beat;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, ease-in-out);
+          animation-timing-function: var(--fa-animation-timing, ease-in-out); }
+
+.fa-bounce {
+  -webkit-animation-name: fa-bounce;
+          animation-name: fa-bounce;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, cubic-bezier(0.28, 0.84, 0.42, 1));
+          animation-timing-function: var(--fa-animation-timing, cubic-bezier(0.28, 0.84, 0.42, 1)); }
+
+.fa-fade {
+  -webkit-animation-name: fa-fade;
+          animation-name: fa-fade;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, cubic-bezier(0.4, 0, 0.6, 1));
+          animation-timing-function: var(--fa-animation-timing, cubic-bezier(0.4, 0, 0.6, 1)); }
+
+.fa-beat-fade {
+  -webkit-animation-name: fa-beat-fade;
+          animation-name: fa-beat-fade;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, cubic-bezier(0.4, 0, 0.6, 1));
+          animation-timing-function: var(--fa-animation-timing, cubic-bezier(0.4, 0, 0.6, 1)); }
+
+.fa-flip {
+  -webkit-animation-name: fa-flip;
+          animation-name: fa-flip;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, ease-in-out);
+          animation-timing-function: var(--fa-animation-timing, ease-in-out); }
+
+.fa-shake {
+  -webkit-animation-name: fa-shake;
+          animation-name: fa-shake;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, linear);
+          animation-timing-function: var(--fa-animation-timing, linear); }
+
+.fa-spin {
+  -webkit-animation-name: fa-spin;
+          animation-name: fa-spin;
+  -webkit-animation-delay: var(--fa-animation-delay, 0s);
+          animation-delay: var(--fa-animation-delay, 0s);
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 2s);
+          animation-duration: var(--fa-animation-duration, 2s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, linear);
+          animation-timing-function: var(--fa-animation-timing, linear); }
+
+.fa-spin-reverse {
+  --fa-animation-direction: reverse; }
+
+.fa-pulse,
+.fa-spin-pulse {
+  -webkit-animation-name: fa-spin;
+          animation-name: fa-spin;
+  -webkit-animation-direction: var(--fa-animation-direction, normal);
+          animation-direction: var(--fa-animation-direction, normal);
+  -webkit-animation-duration: var(--fa-animation-duration, 1s);
+          animation-duration: var(--fa-animation-duration, 1s);
+  -webkit-animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+          animation-iteration-count: var(--fa-animation-iteration-count, infinite);
+  -webkit-animation-timing-function: var(--fa-animation-timing, steps(8));
+          animation-timing-function: var(--fa-animation-timing, steps(8)); }
+
+@media (prefers-reduced-motion: reduce) {
+  .fa-beat,
+  .fa-bounce,
+  .fa-fade,
+  .fa-beat-fade,
+  .fa-flip,
+  .fa-pulse,
+  .fa-shake,
+  .fa-spin,
+  .fa-spin-pulse {
+    -webkit-animation-delay: -1ms;
+            animation-delay: -1ms;
+    -webkit-animation-duration: 1ms;
+            animation-duration: 1ms;
+    -webkit-animation-iteration-count: 1;
+            animation-iteration-count: 1;
+    -webkit-transition-delay: 0s;
+            transition-delay: 0s;
+    -webkit-transition-duration: 0s;
+            transition-duration: 0s; } }
+
+@-webkit-keyframes fa-beat {
+  0%, 90% {
+    -webkit-transform: scale(1);
+            transform: scale(1); }
+  45% {
+    -webkit-transform: scale(var(--fa-beat-scale, 1.25));
+            transform: scale(var(--fa-beat-scale, 1.25)); } }
+
+@keyframes fa-beat {
+  0%, 90% {
+    -webkit-transform: scale(1);
+            transform: scale(1); }
+  45% {
+    -webkit-transform: scale(var(--fa-beat-scale, 1.25));
+            transform: scale(var(--fa-beat-scale, 1.25)); } }
+
+@-webkit-keyframes fa-bounce {
+  0% {
+    -webkit-transform: scale(1, 1) translateY(0);
+            transform: scale(1, 1) translateY(0); }
+  10% {
+    -webkit-transform: scale(var(--fa-bounce-start-scale-x, 1.1), var(--fa-bounce-start-scale-y, 0.9)) translateY(0);
+            transform: scale(var(--fa-bounce-start-scale-x, 1.1), var(--fa-bounce-start-scale-y, 0.9)) translateY(0); }
+  30% {
+    -webkit-transform: scale(var(--fa-bounce-jump-scale-x, 0.9), var(--fa-bounce-jump-scale-y, 1.1)) translateY(var(--fa-bounce-height, -0.5em));
+            transform: scale(var(--fa-bounce-jump-scale-x, 0.9), var(--fa-bounce-jump-scale-y, 1.1)) translateY(var(--fa-bounce-height, -0.5em)); }
+  50% {
+    -webkit-transform: scale(var(--fa-bounce-land-scale-x, 1.05), var(--fa-bounce-land-scale-y, 0.95)) translateY(0);
+            transform: scale(var(--fa-bounce-land-scale-x, 1.05), var(--fa-bounce-land-scale-y, 0.95)) translateY(0); }
+  57% {
+    -webkit-transform: scale(1, 1) translateY(var(--fa-bounce-rebound, -0.125em));
+            transform: scale(1, 1) translateY(var(--fa-bounce-rebound, -0.125em)); }
+  64% {
+    -webkit-transform: scale(1, 1) translateY(0);
+            transform: scale(1, 1) translateY(0); }
+  100% {
+    -webkit-transform: scale(1, 1) translateY(0);
+            transform: scale(1, 1) translateY(0); } }
+
+@keyframes fa-bounce {
+  0% {
+    -webkit-transform: scale(1, 1) translateY(0);
+            transform: scale(1, 1) translateY(0); }
+  10% {
+    -webkit-transform: scale(var(--fa-bounce-start-scale-x, 1.1), var(--fa-bounce-start-scale-y, 0.9)) translateY(0);
+            transform: scale(var(--fa-bounce-start-scale-x, 1.1), var(--fa-bounce-start-scale-y, 0.9)) translateY(0); }
+  30% {
+    -webkit-transform: scale(var(--fa-bounce-jump-scale-x, 0.9), var(--fa-bounce-jump-scale-y, 1.1)) translateY(var(--fa-bounce-height, -0.5em));
+            transform: scale(var(--fa-bounce-jump-scale-x, 0.9), var(--fa-bounce-jump-scale-y, 1.1)) translateY(var(--fa-bounce-height, -0.5em)); }
+  50% {
+    -webkit-transform: scale(var(--fa-bounce-land-scale-x, 1.05), var(--fa-bounce-land-scale-y, 0.95)) translateY(0);
+            transform: scale(var(--fa-bounce-land-scale-x, 1.05), var(--fa-bounce-land-scale-y, 0.95)) translateY(0); }
+  57% {
+    -webkit-transform: scale(1, 1) translateY(var(--fa-bounce-rebound, -0.125em));
+            transform: scale(1, 1) translateY(var(--fa-bounce-rebound, -0.125em)); }
+  64% {
+    -webkit-transform: scale(1, 1) translateY(0);
+            transform: scale(1, 1) translateY(0); }
+  100% {
+    -webkit-transform: scale(1, 1) translateY(0);
+            transform: scale(1, 1) translateY(0); } }
+
+@-webkit-keyframes fa-fade {
+  50% {
+    opacity: var(--fa-fade-opacity, 0.4); } }
+
+@keyframes fa-fade {
+  50% {
+    opacity: var(--fa-fade-opacity, 0.4); } }
+
+@-webkit-keyframes fa-beat-fade {
+  0%, 100% {
+    opacity: var(--fa-beat-fade-opacity, 0.4);
+    -webkit-transform: scale(1);
+            transform: scale(1); }
+  50% {
+    opacity: 1;
+    -webkit-transform: scale(var(--fa-beat-fade-scale, 1.125));
+            transform: scale(var(--fa-beat-fade-scale, 1.125)); } }
+
+@keyframes fa-beat-fade {
+  0%, 100% {
+    opacity: var(--fa-beat-fade-opacity, 0.4);
+    -webkit-transform: scale(1);
+            transform: scale(1); }
+  50% {
+    opacity: 1;
+    -webkit-transform: scale(var(--fa-beat-fade-scale, 1.125));
+            transform: scale(var(--fa-beat-fade-scale, 1.125)); } }
+
+@-webkit-keyframes fa-flip {
+  50% {
+    -webkit-transform: rotate3d(var(--fa-flip-x, 0), var(--fa-flip-y, 1), var(--fa-flip-z, 0), var(--fa-flip-angle, -180deg));
+            transform: rotate3d(var(--fa-flip-x, 0), var(--fa-flip-y, 1), var(--fa-flip-z, 0), var(--fa-flip-angle, -180deg)); } }
+
+@keyframes fa-flip {
+  50% {
+    -webkit-transform: rotate3d(var(--fa-flip-x, 0), var(--fa-flip-y, 1), var(--fa-flip-z, 0), var(--fa-flip-angle, -180deg));
+            transform: rotate3d(var(--fa-flip-x, 0), var(--fa-flip-y, 1), var(--fa-flip-z, 0), var(--fa-flip-angle, -180deg)); } }
+
+@-webkit-keyframes fa-shake {
+  0% {
+    -webkit-transform: rotate(-15deg);
+            transform: rotate(-15deg); }
+  4% {
+    -webkit-transform: rotate(15deg);
+            transform: rotate(15deg); }
+  8%, 24% {
+    -webkit-transform: rotate(-18deg);
+            transform: rotate(-18deg); }
+  12%, 28% {
+    -webkit-transform: rotate(18deg);
+            transform: rotate(18deg); }
+  16% {
+    -webkit-transform: rotate(-22deg);
+            transform: rotate(-22deg); }
+  20% {
+    -webkit-transform: rotate(22deg);
+            transform: rotate(22deg); }
+  32% {
+    -webkit-transform: rotate(-12deg);
+            transform: rotate(-12deg); }
+  36% {
+    -webkit-transform: rotate(12deg);
+            transform: rotate(12deg); }
+  40%, 100% {
+    -webkit-transform: rotate(0deg);
+            transform: rotate(0deg); } }
+
+@keyframes fa-shake {
+  0% {
+    -webkit-transform: rotate(-15deg);
+            transform: rotate(-15deg); }
+  4% {
+    -webkit-transform: rotate(15deg);
+            transform: rotate(15deg); }
+  8%, 24% {
+    -webkit-transform: rotate(-18deg);
+            transform: rotate(-18deg); }
+  12%, 28% {
+    -webkit-transform: rotate(18deg);
+            transform: rotate(18deg); }
+  16% {
+    -webkit-transform: rotate(-22deg);
+            transform: rotate(-22deg); }
+  20% {
+    -webkit-transform: rotate(22deg);
+            transform: rotate(22deg); }
+  32% {
+    -webkit-transform: rotate(-12deg);
+            transform: rotate(-12deg); }
+  36% {
+    -webkit-transform: rotate(12deg);
+            transform: rotate(12deg); }
+  40%, 100% {
+    -webkit-transform: rotate(0deg);
+            transform: rotate(0deg); } }
+
+@-webkit-keyframes fa-spin {
+  0% {
+    -webkit-transform: rotate(0deg);
+            transform: rotate(0deg); }
+  100% {
+    -webkit-transform: rotate(360deg);
+            transform: rotate(360deg); } }
+
+@keyframes fa-spin {
+  0% {
+    -webkit-transform: rotate(0deg);
+            transform: rotate(0deg); }
+  100% {
+    -webkit-transform: rotate(360deg);
+            transform: rotate(360deg); } }
+
+.fa-rotate-90 {
+  -webkit-transform: rotate(90deg);
+          transform: rotate(90deg); }
+
+.fa-rotate-180 {
+  -webkit-transform: rotate(180deg);
+          transform: rotate(180deg); }
+
+.fa-rotate-270 {
+  -webkit-transform: rotate(270deg);
+          transform: rotate(270deg); }
+
+.fa-flip-horizontal {
+  -webkit-transform: scale(-1, 1);
+          transform: scale(-1, 1); }
+
+.fa-flip-vertical {
+  -webkit-transform: scale(1, -1);
+          transform: scale(1, -1); }
+
+.fa-flip-both,
+.fa-flip-horizontal.fa-flip-vertical {
+  -webkit-transform: scale(-1, -1);
+          transform: scale(-1, -1); }
+
+.fa-rotate-by {
+  -webkit-transform: rotate(var(--fa-rotate-angle, none));
+          transform: rotate(var(--fa-rotate-angle, none)); }
+
+.fa-stack {
+  display: inline-block;
+  height: 2em;
+  line-height: 2em;
+  position: relative;
+  vertical-align: middle;
+  width: 2.5em; }
+
+.fa-stack-1x,
+.fa-stack-2x {
+  left: 0;
+  position: absolute;
+  text-align: center;
+  width: 100%;
+  z-index: var(--fa-stack-z-index, auto); }
+
+.fa-stack-1x {
+  line-height: inherit; }
+
+.fa-stack-2x {
+  font-size: 2em; }
+
+.fa-inverse {
+  color: var(--fa-inverse, #fff); }
+
+/* Font Awesome uses the Unicode Private Use Area (PUA) to ensure screen
+readers do not read off random characters that represent icons */
+
+.fa-0::before {
+  content: "\30"; }
+
+.fa-1::before {
+  content: "\31"; }
+
+.fa-2::before {
+  content: "\32"; }
+
+.fa-3::before {
+  content: "\33"; }
+
+.fa-4::before {
+  content: "\34"; }
+
+.fa-5::before {
+  content: "\35"; }
+
+.fa-6::before {
+  content: "\36"; }
+
+.fa-7::before {
+  content: "\37"; }
+
+.fa-8::before {
+  content: "\38"; }
+
+.fa-9::before {
+  content: "\39"; }
+
+.fa-fill-drip::before {
+  content: "\f576"; }
+
+.fa-arrows-to-circle::before {
+  content: "\e4bd"; }
+
+.fa-circle-chevron-right::before {
+  content: "\f138"; }
+
+.fa-chevron-circle-right::before {
+  content: "\f138"; }
+
+.fa-at::before {
+  content: "\40"; }
+
+.fa-trash-can::before {
+  content: "\f2ed"; }
+
+.fa-trash-alt::before {
+  content: "\f2ed"; }
+
+.fa-text-height::before {
+  content: "\f034"; }
+
+.fa-user-xmark::before {
+  content: "\f235"; }
+
+.fa-user-times::before {
+  content: "\f235"; }
+
+.fa-stethoscope::before {
+  content: "\f0f1"; }
+
+.fa-message::before {
+  content: "\f27a"; }
+
+.fa-comment-alt::before {
+  content: "\f27a"; }
+
+.fa-info::before {
+  content: "\f129"; }
+
+.fa-down-left-and-up-right-to-center::before {
+  content: "\f422"; }
+
+.fa-compress-alt::before {
+  content: "\f422"; }
+
+.fa-explosion::before {
+  content: "\e4e9"; }
+
+.fa-file-lines::before {
+  content: "\f15c"; }
+
+.fa-file-alt::before {
+  content: "\f15c"; }
+
+.fa-file-text::before {
+  content: "\f15c"; }
+
+.fa-wave-square::before {
+  content: "\f83e"; }
+
+.fa-ring::before {
+  content: "\f70b"; }
+
+.fa-building-un::before {
+  content: "\e4d9"; }
+
+.fa-dice-three::before {
+  content: "\f527"; }
+
+.fa-calendar-days::before {
+  content: "\f073"; }
+
+.fa-calendar-alt::before {
+  content: "\f073"; }
+
+.fa-anchor-circle-check::before {
+  content: "\e4aa"; }
+
+.fa-building-circle-arrow-right::before {
+  content: "\e4d1"; }
+
+.fa-volleyball::before {
+  content: "\f45f"; }
+
+.fa-volleyball-ball::before {
+  content: "\f45f"; }
+
+.fa-arrows-up-to-line::before {
+  content: "\e4c2"; }
+
+.fa-sort-down::before {
+  content: "\f0dd"; }
+
+.fa-sort-desc::before {
+  content: "\f0dd"; }
+
+.fa-circle-minus::before {
+  content: "\f056"; }
+
+.fa-minus-circle::before {
+  content: "\f056"; }
+
+.fa-door-open::before {
+  content: "\f52b"; }
+
+.fa-right-from-bracket::before {
+  content: "\f2f5"; }
+
+.fa-sign-out-alt::before {
+  content: "\f2f5"; }
+
+.fa-atom::before {
+  content: "\f5d2"; }
+
+.fa-soap::before {
+  content: "\e06e"; }
+
+.fa-icons::before {
+  content: "\f86d"; }
+
+.fa-heart-music-camera-bolt::before {
+  content: "\f86d"; }
+
+.fa-microphone-lines-slash::before {
+  content: "\f539"; }
+
+.fa-microphone-alt-slash::before {
+  content: "\f539"; }
+
+.fa-bridge-circle-check::before {
+  content: "\e4c9"; }
+
+.fa-pump-medical::before {
+  content: "\e06a"; }
+
+.fa-fingerprint::before {
+  content: "\f577"; }
+
+.fa-hand-point-right::before {
+  content: "\f0a4"; }
+
+.fa-magnifying-glass-location::before {
+  content: "\f689"; }
+
+.fa-search-location::before {
+  content: "\f689"; }
+
+.fa-forward-step::before {
+  content: "\f051"; }
+
+.fa-step-forward::before {
+  content: "\f051"; }
+
+.fa-face-smile-beam::before {
+  content: "\f5b8"; }
+
+.fa-smile-beam::before {
+  content: "\f5b8"; }
+
+.fa-flag-checkered::before {
+  content: "\f11e"; }
+
+.fa-football::before {
+  content: "\f44e"; }
+
+.fa-football-ball::before {
+  content: "\f44e"; }
+
+.fa-school-circle-exclamation::before {
+  content: "\e56c"; }
+
+.fa-crop::before {
+  content: "\f125"; }
+
+.fa-angles-down::before {
+  content: "\f103"; }
+
+.fa-angle-double-down::before {
+  content: "\f103"; }
+
+.fa-users-rectangle::before {
+  content: "\e594"; }
+
+.fa-people-roof::before {
+  content: "\e537"; }
+
+.fa-people-line::before {
+  content: "\e534"; }
+
+.fa-beer-mug-empty::before {
+  content: "\f0fc"; }
+
+.fa-beer::before {
+  content: "\f0fc"; }
+
+.fa-diagram-predecessor::before {
+  content: "\e477"; }
+
+.fa-arrow-up-long::before {
+  content: "\f176"; }
+
+.fa-long-arrow-up::before {
+  content: "\f176"; }
+
+.fa-fire-flame-simple::before {
+  content: "\f46a"; }
+
+.fa-burn::before {
+  content: "\f46a"; }
+
+.fa-person::before {
+  content: "\f183"; }
+
+.fa-male::before {
+  content: "\f183"; }
+
+.fa-laptop::before {
+  content: "\f109"; }
+
+.fa-file-csv::before {
+  content: "\f6dd"; }
+
+.fa-menorah::before {
+  content: "\f676"; }
+
+.fa-truck-plane::before {
+  content: "\e58f"; }
+
+.fa-record-vinyl::before {
+  content: "\f8d9"; }
+
+.fa-face-grin-stars::before {
+  content: "\f587"; }
+
+.fa-grin-stars::before {
+  content: "\f587"; }
+
+.fa-bong::before {
+  content: "\f55c"; }
+
+.fa-spaghetti-monster-flying::before {
+  content: "\f67b"; }
+
+.fa-pastafarianism::before {
+  content: "\f67b"; }
+
+.fa-arrow-down-up-across-line::before {
+  content: "\e4af"; }
+
+.fa-spoon::before {
+  content: "\f2e5"; }
+
+.fa-utensil-spoon::before {
+  content: "\f2e5"; }
+
+.fa-jar-wheat::before {
+  content: "\e517"; }
+
+.fa-envelopes-bulk::before {
+  content: "\f674"; }
+
+.fa-mail-bulk::before {
+  content: "\f674"; }
+
+.fa-file-circle-exclamation::before {
+  content: "\e4eb"; }
+
+.fa-circle-h::before {
+  content: "\f47e"; }
+
+.fa-hospital-symbol::before {
+  content: "\f47e"; }
+
+.fa-pager::before {
+  content: "\f815"; }
+
+.fa-address-book::before {
+  content: "\f2b9"; }
+
+.fa-contact-book::before {
+  content: "\f2b9"; }
+
+.fa-strikethrough::before {
+  content: "\f0cc"; }
+
+.fa-k::before {
+  content: "\4b"; }
+
+.fa-landmark-flag::before {
+  content: "\e51c"; }
+
+.fa-pencil::before {
+  content: "\f303"; }
+
+.fa-pencil-alt::before {
+  content: "\f303"; }
+
+.fa-backward::before {
+  content: "\f04a"; }
+
+.fa-caret-right::before {
+  content: "\f0da"; }
+
+.fa-comments::before {
+  content: "\f086"; }
+
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+  content: "\f0ea"; }
+
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+  content: "\f0ea"; }
+
+.fa-code-pull-request::before {
+  content: "\e13c"; }
+
+.fa-clipboard-list::before {
+  content: "\f46d"; }
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+.fa-truck-ramp-box::before {
+  content: "\f4de"; }
+
+.fa-truck-loading::before {
+  content: "\f4de"; }
+
+.fa-user-check::before {
+  content: "\f4fc"; }
+
+.fa-vial-virus::before {
+  content: "\e597"; }
+
+.fa-sheet-plastic::before {
+  content: "\e571"; }
+
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+  content: "\f781"; }
+
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+  content: "\f504"; }
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+  content: "\e539"; }
+
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+  content: "\f6a0"; }
+
+.fa-torah::before {
+  content: "\f6a0"; }
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+.fa-broom-ball::before {
+  content: "\f458"; }
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+  content: "\f458"; }
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+  content: "\f458"; }
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+  content: "\f204"; }
+
+.fa-box-archive::before {
+  content: "\f187"; }
+
+.fa-archive::before {
+  content: "\f187"; }
+
+.fa-person-drowning::before {
+  content: "\e545"; }
+
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+  content: "\f886"; }
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+  content: "\f886"; }
+
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+  content: "\f886"; }
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+  content: "\f58a"; }
+
+.fa-grin-tongue-squint::before {
+  content: "\f58a"; }
+
+.fa-spray-can::before {
+  content: "\f5bd"; }
+
+.fa-truck-monster::before {
+  content: "\f63b"; }
+
+.fa-w::before {
+  content: "\57"; }
+
+.fa-earth-africa::before {
+  content: "\f57c"; }
+
+.fa-globe-africa::before {
+  content: "\f57c"; }
+
+.fa-rainbow::before {
+  content: "\f75b"; }
+
+.fa-circle-notch::before {
+  content: "\f1ce"; }
+
+.fa-tablet-screen-button::before {
+  content: "\f3fa"; }
+
+.fa-tablet-alt::before {
+  content: "\f3fa"; }
+
+.fa-paw::before {
+  content: "\f1b0"; }
+
+.fa-cloud::before {
+  content: "\f0c2"; }
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+.fa-trowel-bricks::before {
+  content: "\e58a"; }
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+.fa-face-flushed::before {
+  content: "\f579"; }
+
+.fa-flushed::before {
+  content: "\f579"; }
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+  content: "\f80d"; }
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+  content: "\e57f"; }
+
+.fa-gavel::before {
+  content: "\f0e3"; }
+
+.fa-legal::before {
+  content: "\f0e3"; }
+
+.fa-binoculars::before {
+  content: "\f1e5"; }
+
+.fa-microphone-slash::before {
+  content: "\f131"; }
+
+.fa-box-tissue::before {
+  content: "\e05b"; }
+
+.fa-motorcycle::before {
+  content: "\f21c"; }
+
+.fa-bell-concierge::before {
+  content: "\f562"; }
+
+.fa-concierge-bell::before {
+  content: "\f562"; }
+
+.fa-pen-ruler::before {
+  content: "\f5ae"; }
+
+.fa-pencil-ruler::before {
+  content: "\f5ae"; }
+
+.fa-people-arrows::before {
+  content: "\e068"; }
+
+.fa-people-arrows-left-right::before {
+  content: "\e068"; }
+
+.fa-mars-and-venus-burst::before {
+  content: "\e523"; }
+
+.fa-square-caret-right::before {
+  content: "\f152"; }
+
+.fa-caret-square-right::before {
+  content: "\f152"; }
+
+.fa-scissors::before {
+  content: "\f0c4"; }
+
+.fa-cut::before {
+  content: "\f0c4"; }
+
+.fa-sun-plant-wilt::before {
+  content: "\e57a"; }
+
+.fa-toilets-portable::before {
+  content: "\e584"; }
+
+.fa-hockey-puck::before {
+  content: "\f453"; }
+
+.fa-table::before {
+  content: "\f0ce"; }
+
+.fa-magnifying-glass-arrow-right::before {
+  content: "\e521"; }
+
+.fa-tachograph-digital::before {
+  content: "\f566"; }
+
+.fa-digital-tachograph::before {
+  content: "\f566"; }
+
+.fa-users-slash::before {
+  content: "\e073"; }
+
+.fa-clover::before {
+  content: "\e139"; }
+
+.fa-reply::before {
+  content: "\f3e5"; }
+
+.fa-mail-reply::before {
+  content: "\f3e5"; }
+
+.fa-star-and-crescent::before {
+  content: "\f699"; }
+
+.fa-house-fire::before {
+  content: "\e50c"; }
+
+.fa-square-minus::before {
+  content: "\f146"; }
+
+.fa-minus-square::before {
+  content: "\f146"; }
+
+.fa-helicopter::before {
+  content: "\f533"; }
+
+.fa-compass::before {
+  content: "\f14e"; }
+
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+  content: "\f150"; }
+
+.fa-caret-square-down::before {
+  content: "\f150"; }
+
+.fa-file-circle-question::before {
+  content: "\e4ef"; }
+
+.fa-laptop-code::before {
+  content: "\f5fc"; }
+
+.fa-swatchbook::before {
+  content: "\f5c3"; }
+
+.fa-prescription-bottle::before {
+  content: "\f485"; }
+
+.fa-bars::before {
+  content: "\f0c9"; }
+
+.fa-navicon::before {
+  content: "\f0c9"; }
+
+.fa-people-group::before {
+  content: "\e533"; }
+
+.fa-hourglass-end::before {
+  content: "\f253"; }
+
+.fa-hourglass-3::before {
+  content: "\f253"; }
+
+.fa-heart-crack::before {
+  content: "\f7a9"; }
+
+.fa-heart-broken::before {
+  content: "\f7a9"; }
+
+.fa-square-up-right::before {
+  content: "\f360"; }
+
+.fa-external-link-square-alt::before {
+  content: "\f360"; }
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+.fa-face-kiss-beam::before {
+  content: "\f597"; }
+
+.fa-kiss-beam::before {
+  content: "\f597"; }
+
+.fa-film::before {
+  content: "\f008"; }
+
+.fa-ruler-horizontal::before {
+  content: "\f547"; }
+
+.fa-people-robbery::before {
+  content: "\e536"; }
+
+.fa-lightbulb::before {
+  content: "\f0eb"; }
+
+.fa-caret-left::before {
+  content: "\f0d9"; }
+
+.fa-circle-exclamation::before {
+  content: "\f06a"; }
+
+.fa-exclamation-circle::before {
+  content: "\f06a"; }
+
+.fa-school-circle-xmark::before {
+  content: "\e56d"; }
+
+.fa-arrow-right-from-bracket::before {
+  content: "\f08b"; }
+
+.fa-sign-out::before {
+  content: "\f08b"; }
+
+.fa-circle-chevron-down::before {
+  content: "\f13a"; }
+
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+  content: "\f13a"; }
+
+.fa-unlock-keyhole::before {
+  content: "\f13e"; }
+
+.fa-unlock-alt::before {
+  content: "\f13e"; }
+
+.fa-cloud-showers-heavy::before {
+  content: "\f740"; }
+
+.fa-headphones-simple::before {
+  content: "\f58f"; }
+
+.fa-headphones-alt::before {
+  content: "\f58f"; }
+
+.fa-sitemap::before {
+  content: "\f0e8"; }
+
+.fa-circle-dollar-to-slot::before {
+  content: "\f4b9"; }
+
+.fa-donate::before {
+  content: "\f4b9"; }
+
+.fa-memory::before {
+  content: "\f538"; }
+
+.fa-road-spikes::before {
+  content: "\e568"; }
+
+.fa-fire-burner::before {
+  content: "\e4f1"; }
+
+.fa-flag::before {
+  content: "\f024"; }
+
+.fa-hanukiah::before {
+  content: "\f6e6"; }
+
+.fa-feather::before {
+  content: "\f52d"; }
+
+.fa-volume-low::before {
+  content: "\f027"; }
+
+.fa-volume-down::before {
+  content: "\f027"; }
+
+.fa-comment-slash::before {
+  content: "\f4b3"; }
+
+.fa-cloud-sun-rain::before {
+  content: "\f743"; }
+
+.fa-compress::before {
+  content: "\f066"; }
+
+.fa-wheat-awn::before {
+  content: "\e2cd"; }
+
+.fa-wheat-alt::before {
+  content: "\e2cd"; }
+
+.fa-ankh::before {
+  content: "\f644"; }
+
+.fa-hands-holding-child::before {
+  content: "\e4fa"; }
+
+.fa-asterisk::before {
+  content: "\2a"; }
+
+.fa-square-check::before {
+  content: "\f14a"; }
+
+.fa-check-square::before {
+  content: "\f14a"; }
+
+.fa-peseta-sign::before {
+  content: "\e221"; }
+
+.fa-heading::before {
+  content: "\f1dc"; }
+
+.fa-header::before {
+  content: "\f1dc"; }
+
+.fa-ghost::before {
+  content: "\f6e2"; }
+
+.fa-list::before {
+  content: "\f03a"; }
+
+.fa-list-squares::before {
+  content: "\f03a"; }
+
+.fa-square-phone-flip::before {
+  content: "\f87b"; }
+
+.fa-phone-square-alt::before {
+  content: "\f87b"; }
+
+.fa-cart-plus::before {
+  content: "\f217"; }
+
+.fa-gamepad::before {
+  content: "\f11b"; }
+
+.fa-circle-dot::before {
+  content: "\f192"; }
+
+.fa-dot-circle::before {
+  content: "\f192"; }
+
+.fa-face-dizzy::before {
+  content: "\f567"; }
+
+.fa-dizzy::before {
+  content: "\f567"; }
+
+.fa-egg::before {
+  content: "\f7fb"; }
+
+.fa-house-medical-circle-xmark::before {
+  content: "\e513"; }
+
+.fa-campground::before {
+  content: "\f6bb"; }
+
+.fa-folder-plus::before {
+  content: "\f65e"; }
+
+.fa-futbol::before {
+  content: "\f1e3"; }
+
+.fa-futbol-ball::before {
+  content: "\f1e3"; }
+
+.fa-soccer-ball::before {
+  content: "\f1e3"; }
+
+.fa-paintbrush::before {
+  content: "\f1fc"; }
+
+.fa-paint-brush::before {
+  content: "\f1fc"; }
+
+.fa-lock::before {
+  content: "\f023"; }
+
+.fa-gas-pump::before {
+  content: "\f52f"; }
+
+.fa-hot-tub-person::before {
+  content: "\f593"; }
+
+.fa-hot-tub::before {
+  content: "\f593"; }
+
+.fa-map-location::before {
+  content: "\f59f"; }
+
+.fa-map-marked::before {
+  content: "\f59f"; }
+
+.fa-house-flood-water::before {
+  content: "\e50e"; }
+
+.fa-tree::before {
+  content: "\f1bb"; }
+
+.fa-bridge-lock::before {
+  content: "\e4cc"; }
+
+.fa-sack-dollar::before {
+  content: "\f81d"; }
+
+.fa-pen-to-square::before {
+  content: "\f044"; }
+
+.fa-edit::before {
+  content: "\f044"; }
+
+.fa-car-side::before {
+  content: "\f5e4"; }
+
+.fa-share-nodes::before {
+  content: "\f1e0"; }
+
+.fa-share-alt::before {
+  content: "\f1e0"; }
+
+.fa-heart-circle-minus::before {
+  content: "\e4ff"; }
+
+.fa-hourglass-half::before {
+  content: "\f252"; }
+
+.fa-hourglass-2::before {
+  content: "\f252"; }
+
+.fa-microscope::before {
+  content: "\f610"; }
+
+.fa-sink::before {
+  content: "\e06d"; }
+
+.fa-bag-shopping::before {
+  content: "\f290"; }
+
+.fa-shopping-bag::before {
+  content: "\f290"; }
+
+.fa-arrow-down-z-a::before {
+  content: "\f881"; }
+
+.fa-sort-alpha-desc::before {
+  content: "\f881"; }
+
+.fa-sort-alpha-down-alt::before {
+  content: "\f881"; }
+
+.fa-mitten::before {
+  content: "\f7b5"; }
+
+.fa-person-rays::before {
+  content: "\e54d"; }
+
+.fa-users::before {
+  content: "\f0c0"; }
+
+.fa-eye-slash::before {
+  content: "\f070"; }
+
+.fa-flask-vial::before {
+  content: "\e4f3"; }
+
+.fa-hand::before {
+  content: "\f256"; }
+
+.fa-hand-paper::before {
+  content: "\f256"; }
+
+.fa-om::before {
+  content: "\f679"; }
+
+.fa-worm::before {
+  content: "\e599"; }
+
+.fa-house-circle-xmark::before {
+  content: "\e50b"; }
+
+.fa-plug::before {
+  content: "\f1e6"; }
+
+.fa-chevron-up::before {
+  content: "\f077"; }
+
+.fa-hand-spock::before {
+  content: "\f259"; }
+
+.fa-stopwatch::before {
+  content: "\f2f2"; }
+
+.fa-face-kiss::before {
+  content: "\f596"; }
+
+.fa-kiss::before {
+  content: "\f596"; }
+
+.fa-bridge-circle-xmark::before {
+  content: "\e4cb"; }
+
+.fa-face-grin-tongue::before {
+  content: "\f589"; }
+
+.fa-grin-tongue::before {
+  content: "\f589"; }
+
+.fa-chess-bishop::before {
+  content: "\f43a"; }
+
+.fa-face-grin-wink::before {
+  content: "\f58c"; }
+
+.fa-grin-wink::before {
+  content: "\f58c"; }
+
+.fa-ear-deaf::before {
+  content: "\f2a4"; }
+
+.fa-deaf::before {
+  content: "\f2a4"; }
+
+.fa-deafness::before {
+  content: "\f2a4"; }
+
+.fa-hard-of-hearing::before {
+  content: "\f2a4"; }
+
+.fa-road-circle-check::before {
+  content: "\e564"; }
+
+.fa-dice-five::before {
+  content: "\f523"; }
+
+.fa-square-rss::before {
+  content: "\f143"; }
+
+.fa-rss-square::before {
+  content: "\f143"; }
+
+.fa-land-mine-on::before {
+  content: "\e51b"; }
+
+.fa-i-cursor::before {
+  content: "\f246"; }
+
+.fa-stamp::before {
+  content: "\f5bf"; }
+
+.fa-stairs::before {
+  content: "\e289"; }
+
+.fa-i::before {
+  content: "\49"; }
+
+.fa-hryvnia-sign::before {
+  content: "\f6f2"; }
+
+.fa-hryvnia::before {
+  content: "\f6f2"; }
+
+.fa-pills::before {
+  content: "\f484"; }
+
+.fa-face-grin-wide::before {
+  content: "\f581"; }
+
+.fa-grin-alt::before {
+  content: "\f581"; }
+
+.fa-tooth::before {
+  content: "\f5c9"; }
+
+.fa-v::before {
+  content: "\56"; }
+
+.fa-bangladeshi-taka-sign::before {
+  content: "\e2e6"; }
+
+.fa-bicycle::before {
+  content: "\f206"; }
+
+.fa-staff-snake::before {
+  content: "\e579"; }
+
+.fa-rod-asclepius::before {
+  content: "\e579"; }
+
+.fa-rod-snake::before {
+  content: "\e579"; }
+
+.fa-staff-aesculapius::before {
+  content: "\e579"; }
+
+.fa-head-side-cough-slash::before {
+  content: "\e062"; }
+
+.fa-truck-medical::before {
+  content: "\f0f9"; }
+
+.fa-ambulance::before {
+  content: "\f0f9"; }
+
+.fa-wheat-awn-circle-exclamation::before {
+  content: "\e598"; }
+
+.fa-snowman::before {
+  content: "\f7d0"; }
+
+.fa-mortar-pestle::before {
+  content: "\f5a7"; }
+
+.fa-road-barrier::before {
+  content: "\e562"; }
+
+.fa-school::before {
+  content: "\f549"; }
+
+.fa-igloo::before {
+  content: "\f7ae"; }
+
+.fa-joint::before {
+  content: "\f595"; }
+
+.fa-angle-right::before {
+  content: "\f105"; }
+
+.fa-horse::before {
+  content: "\f6f0"; }
+
+.fa-q::before {
+  content: "\51"; }
+
+.fa-g::before {
+  content: "\47"; }
+
+.fa-notes-medical::before {
+  content: "\f481"; }
+
+.fa-temperature-half::before {
+  content: "\f2c9"; }
+
+.fa-temperature-2::before {
+  content: "\f2c9"; }
+
+.fa-thermometer-2::before {
+  content: "\f2c9"; }
+
+.fa-thermometer-half::before {
+  content: "\f2c9"; }
+
+.fa-dong-sign::before {
+  content: "\e169"; }
+
+.fa-capsules::before {
+  content: "\f46b"; }
+
+.fa-poo-storm::before {
+  content: "\f75a"; }
+
+.fa-poo-bolt::before {
+  content: "\f75a"; }
+
+.fa-face-frown-open::before {
+  content: "\f57a"; }
+
+.fa-frown-open::before {
+  content: "\f57a"; }
+
+.fa-hand-point-up::before {
+  content: "\f0a6"; }
+
+.fa-money-bill::before {
+  content: "\f0d6"; }
+
+.fa-bookmark::before {
+  content: "\f02e"; }
+
+.fa-align-justify::before {
+  content: "\f039"; }
+
+.fa-umbrella-beach::before {
+  content: "\f5ca"; }
+
+.fa-helmet-un::before {
+  content: "\e503"; }
+
+.fa-bullseye::before {
+  content: "\f140"; }
+
+.fa-bacon::before {
+  content: "\f7e5"; }
+
+.fa-hand-point-down::before {
+  content: "\f0a7"; }
+
+.fa-arrow-up-from-bracket::before {
+  content: "\e09a"; }
+
+.fa-folder::before {
+  content: "\f07b"; }
+
+.fa-folder-blank::before {
+  content: "\f07b"; }
+
+.fa-file-waveform::before {
+  content: "\f478"; }
+
+.fa-file-medical-alt::before {
+  content: "\f478"; }
+
+.fa-radiation::before {
+  content: "\f7b9"; }
+
+.fa-chart-simple::before {
+  content: "\e473"; }
+
+.fa-mars-stroke::before {
+  content: "\f229"; }
+
+.fa-vial::before {
+  content: "\f492"; }
+
+.fa-gauge::before {
+  content: "\f624"; }
+
+.fa-dashboard::before {
+  content: "\f624"; }
+
+.fa-gauge-med::before {
+  content: "\f624"; }
+
+.fa-tachometer-alt-average::before {
+  content: "\f624"; }
+
+.fa-wand-magic-sparkles::before {
+  content: "\e2ca"; }
+
+.fa-magic-wand-sparkles::before {
+  content: "\e2ca"; }
+
+.fa-e::before {
+  content: "\45"; }
+
+.fa-pen-clip::before {
+  content: "\f305"; }
+
+.fa-pen-alt::before {
+  content: "\f305"; }
+
+.fa-bridge-circle-exclamation::before {
+  content: "\e4ca"; }
+
+.fa-user::before {
+  content: "\f007"; }
+
+.fa-school-circle-check::before {
+  content: "\e56b"; }
+
+.fa-dumpster::before {
+  content: "\f793"; }
+
+.fa-van-shuttle::before {
+  content: "\f5b6"; }
+
+.fa-shuttle-van::before {
+  content: "\f5b6"; }
+
+.fa-building-user::before {
+  content: "\e4da"; }
+
+.fa-square-caret-left::before {
+  content: "\f191"; }
+
+.fa-caret-square-left::before {
+  content: "\f191"; }
+
+.fa-highlighter::before {
+  content: "\f591"; }
+
+.fa-key::before {
+  content: "\f084"; }
+
+.fa-bullhorn::before {
+  content: "\f0a1"; }
+
+.fa-globe::before {
+  content: "\f0ac"; }
+
+.fa-synagogue::before {
+  content: "\f69b"; }
+
+.fa-person-half-dress::before {
+  content: "\e548"; }
+
+.fa-road-bridge::before {
+  content: "\e563"; }
+
+.fa-location-arrow::before {
+  content: "\f124"; }
+
+.fa-c::before {
+  content: "\43"; }
+
+.fa-tablet-button::before {
+  content: "\f10a"; }
+
+.fa-building-lock::before {
+  content: "\e4d6"; }
+
+.fa-pizza-slice::before {
+  content: "\f818"; }
+
+.fa-money-bill-wave::before {
+  content: "\f53a"; }
+
+.fa-chart-area::before {
+  content: "\f1fe"; }
+
+.fa-area-chart::before {
+  content: "\f1fe"; }
+
+.fa-house-flag::before {
+  content: "\e50d"; }
+
+.fa-person-circle-minus::before {
+  content: "\e540"; }
+
+.fa-ban::before {
+  content: "\f05e"; }
+
+.fa-cancel::before {
+  content: "\f05e"; }
+
+.fa-camera-rotate::before {
+  content: "\e0d8"; }
+
+.fa-spray-can-sparkles::before {
+  content: "\f5d0"; }
+
+.fa-air-freshener::before {
+  content: "\f5d0"; }
+
+.fa-star::before {
+  content: "\f005"; }
+
+.fa-repeat::before {
+  content: "\f363"; }
+
+.fa-cross::before {
+  content: "\f654"; }
+
+.fa-box::before {
+  content: "\f466"; }
+
+.fa-venus-mars::before {
+  content: "\f228"; }
+
+.fa-arrow-pointer::before {
+  content: "\f245"; }
+
+.fa-mouse-pointer::before {
+  content: "\f245"; }
+
+.fa-maximize::before {
+  content: "\f31e"; }
+
+.fa-expand-arrows-alt::before {
+  content: "\f31e"; }
+
+.fa-charging-station::before {
+  content: "\f5e7"; }
+
+.fa-shapes::before {
+  content: "\f61f"; }
+
+.fa-triangle-circle-square::before {
+  content: "\f61f"; }
+
+.fa-shuffle::before {
+  content: "\f074"; }
+
+.fa-random::before {
+  content: "\f074"; }
+
+.fa-person-running::before {
+  content: "\f70c"; }
+
+.fa-running::before {
+  content: "\f70c"; }
+
+.fa-mobile-retro::before {
+  content: "\e527"; }
+
+.fa-grip-lines-vertical::before {
+  content: "\f7a5"; }
+
+.fa-spider::before {
+  content: "\f717"; }
+
+.fa-hands-bound::before {
+  content: "\e4f9"; }
+
+.fa-file-invoice-dollar::before {
+  content: "\f571"; }
+
+.fa-plane-circle-exclamation::before {
+  content: "\e556"; }
+
+.fa-x-ray::before {
+  content: "\f497"; }
+
+.fa-spell-check::before {
+  content: "\f891"; }
+
+.fa-slash::before {
+  content: "\f715"; }
+
+.fa-computer-mouse::before {
+  content: "\f8cc"; }
+
+.fa-mouse::before {
+  content: "\f8cc"; }
+
+.fa-arrow-right-to-bracket::before {
+  content: "\f090"; }
+
+.fa-sign-in::before {
+  content: "\f090"; }
+
+.fa-shop-slash::before {
+  content: "\e070"; }
+
+.fa-store-alt-slash::before {
+  content: "\e070"; }
+
+.fa-server::before {
+  content: "\f233"; }
+
+.fa-virus-covid-slash::before {
+  content: "\e4a9"; }
+
+.fa-shop-lock::before {
+  content: "\e4a5"; }
+
+.fa-hourglass-start::before {
+  content: "\f251"; }
+
+.fa-hourglass-1::before {
+  content: "\f251"; }
+
+.fa-blender-phone::before {
+  content: "\f6b6"; }
+
+.fa-building-wheat::before {
+  content: "\e4db"; }
+
+.fa-person-breastfeeding::before {
+  content: "\e53a"; }
+
+.fa-right-to-bracket::before {
+  content: "\f2f6"; }
+
+.fa-sign-in-alt::before {
+  content: "\f2f6"; }
+
+.fa-venus::before {
+  content: "\f221"; }
+
+.fa-passport::before {
+  content: "\f5ab"; }
+
+.fa-heart-pulse::before {
+  content: "\f21e"; }
+
+.fa-heartbeat::before {
+  content: "\f21e"; }
+
+.fa-people-carry-box::before {
+  content: "\f4ce"; }
+
+.fa-people-carry::before {
+  content: "\f4ce"; }
+
+.fa-temperature-high::before {
+  content: "\f769"; }
+
+.fa-microchip::before {
+  content: "\f2db"; }
+
+.fa-crown::before {
+  content: "\f521"; }
+
+.fa-weight-hanging::before {
+  content: "\f5cd"; }
+
+.fa-xmarks-lines::before {
+  content: "\e59a"; }
+
+.fa-file-prescription::before {
+  content: "\f572"; }
+
+.fa-weight-scale::before {
+  content: "\f496"; }
+
+.fa-weight::before {
+  content: "\f496"; }
+
+.fa-user-group::before {
+  content: "\f500"; }
+
+.fa-user-friends::before {
+  content: "\f500"; }
+
+.fa-arrow-up-a-z::before {
+  content: "\f15e"; }
+
+.fa-sort-alpha-up::before {
+  content: "\f15e"; }
+
+.fa-chess-knight::before {
+  content: "\f441"; }
+
+.fa-face-laugh-squint::before {
+  content: "\f59b"; }
+
+.fa-laugh-squint::before {
+  content: "\f59b"; }
+
+.fa-wheelchair::before {
+  content: "\f193"; }
+
+.fa-circle-arrow-up::before {
+  content: "\f0aa"; }
+
+.fa-arrow-circle-up::before {
+  content: "\f0aa"; }
+
+.fa-toggle-on::before {
+  content: "\f205"; }
+
+.fa-person-walking::before {
+  content: "\f554"; }
+
+.fa-walking::before {
+  content: "\f554"; }
+
+.fa-l::before {
+  content: "\4c"; }
+
+.fa-fire::before {
+  content: "\f06d"; }
+
+.fa-bed-pulse::before {
+  content: "\f487"; }
+
+.fa-procedures::before {
+  content: "\f487"; }
+
+.fa-shuttle-space::before {
+  content: "\f197"; }
+
+.fa-space-shuttle::before {
+  content: "\f197"; }
+
+.fa-face-laugh::before {
+  content: "\f599"; }
+
+.fa-laugh::before {
+  content: "\f599"; }
+
+.fa-folder-open::before {
+  content: "\f07c"; }
+
+.fa-heart-circle-plus::before {
+  content: "\e500"; }
+
+.fa-code-fork::before {
+  content: "\e13b"; }
+
+.fa-city::before {
+  content: "\f64f"; }
+
+.fa-microphone-lines::before {
+  content: "\f3c9"; }
+
+.fa-microphone-alt::before {
+  content: "\f3c9"; }
+
+.fa-pepper-hot::before {
+  content: "\f816"; }
+
+.fa-unlock::before {
+  content: "\f09c"; }
+
+.fa-colon-sign::before {
+  content: "\e140"; }
+
+.fa-headset::before {
+  content: "\f590"; }
+
+.fa-store-slash::before {
+  content: "\e071"; }
+
+.fa-road-circle-xmark::before {
+  content: "\e566"; }
+
+.fa-user-minus::before {
+  content: "\f503"; }
+
+.fa-mars-stroke-up::before {
+  content: "\f22a"; }
+
+.fa-mars-stroke-v::before {
+  content: "\f22a"; }
+
+.fa-champagne-glasses::before {
+  content: "\f79f"; }
+
+.fa-glass-cheers::before {
+  content: "\f79f"; }
+
+.fa-clipboard::before {
+  content: "\f328"; }
+
+.fa-house-circle-exclamation::before {
+  content: "\e50a"; }
+
+.fa-file-arrow-up::before {
+  content: "\f574"; }
+
+.fa-file-upload::before {
+  content: "\f574"; }
+
+.fa-wifi::before {
+  content: "\f1eb"; }
+
+.fa-wifi-3::before {
+  content: "\f1eb"; }
+
+.fa-wifi-strong::before {
+  content: "\f1eb"; }
+
+.fa-bath::before {
+  content: "\f2cd"; }
+
+.fa-bathtub::before {
+  content: "\f2cd"; }
+
+.fa-underline::before {
+  content: "\f0cd"; }
+
+.fa-user-pen::before {
+  content: "\f4ff"; }
+
+.fa-user-edit::before {
+  content: "\f4ff"; }
+
+.fa-signature::before {
+  content: "\f5b7"; }
+
+.fa-stroopwafel::before {
+  content: "\f551"; }
+
+.fa-bold::before {
+  content: "\f032"; }
+
+.fa-anchor-lock::before {
+  content: "\e4ad"; }
+
+.fa-building-ngo::before {
+  content: "\e4d7"; }
+
+.fa-manat-sign::before {
+  content: "\e1d5"; }
+
+.fa-not-equal::before {
+  content: "\f53e"; }
+
+.fa-border-top-left::before {
+  content: "\f853"; }
+
+.fa-border-style::before {
+  content: "\f853"; }
+
+.fa-map-location-dot::before {
+  content: "\f5a0"; }
+
+.fa-map-marked-alt::before {
+  content: "\f5a0"; }
+
+.fa-jedi::before {
+  content: "\f669"; }
+
+.fa-square-poll-vertical::before {
+  content: "\f681"; }
+
+.fa-poll::before {
+  content: "\f681"; }
+
+.fa-mug-hot::before {
+  content: "\f7b6"; }
+
+.fa-car-battery::before {
+  content: "\f5df"; }
+
+.fa-battery-car::before {
+  content: "\f5df"; }
+
+.fa-gift::before {
+  content: "\f06b"; }
+
+.fa-dice-two::before {
+  content: "\f528"; }
+
+.fa-chess-queen::before {
+  content: "\f445"; }
+
+.fa-glasses::before {
+  content: "\f530"; }
+
+.fa-chess-board::before {
+  content: "\f43c"; }
+
+.fa-building-circle-check::before {
+  content: "\e4d2"; }
+
+.fa-person-chalkboard::before {
+  content: "\e53d"; }
+
+.fa-mars-stroke-right::before {
+  content: "\f22b"; }
+
+.fa-mars-stroke-h::before {
+  content: "\f22b"; }
+
+.fa-hand-back-fist::before {
+  content: "\f255"; }
+
+.fa-hand-rock::before {
+  content: "\f255"; }
+
+.fa-square-caret-up::before {
+  content: "\f151"; }
+
+.fa-caret-square-up::before {
+  content: "\f151"; }
+
+.fa-cloud-showers-water::before {
+  content: "\e4e4"; }
+
+.fa-chart-bar::before {
+  content: "\f080"; }
+
+.fa-bar-chart::before {
+  content: "\f080"; }
+
+.fa-hands-bubbles::before {
+  content: "\e05e"; }
+
+.fa-hands-wash::before {
+  content: "\e05e"; }
+
+.fa-less-than-equal::before {
+  content: "\f537"; }
+
+.fa-train::before {
+  content: "\f238"; }
+
+.fa-eye-low-vision::before {
+  content: "\f2a8"; }
+
+.fa-low-vision::before {
+  content: "\f2a8"; }
+
+.fa-crow::before {
+  content: "\f520"; }
+
+.fa-sailboat::before {
+  content: "\e445"; }
+
+.fa-window-restore::before {
+  content: "\f2d2"; }
+
+.fa-square-plus::before {
+  content: "\f0fe"; }
+
+.fa-plus-square::before {
+  content: "\f0fe"; }
+
+.fa-torii-gate::before {
+  content: "\f6a1"; }
+
+.fa-frog::before {
+  content: "\f52e"; }
+
+.fa-bucket::before {
+  content: "\e4cf"; }
+
+.fa-image::before {
+  content: "\f03e"; }
+
+.fa-microphone::before {
+  content: "\f130"; }
+
+.fa-cow::before {
+  content: "\f6c8"; }
+
+.fa-caret-up::before {
+  content: "\f0d8"; }
+
+.fa-screwdriver::before {
+  content: "\f54a"; }
+
+.fa-folder-closed::before {
+  content: "\e185"; }
+
+.fa-house-tsunami::before {
+  content: "\e515"; }
+
+.fa-square-nfi::before {
+  content: "\e576"; }
+
+.fa-arrow-up-from-ground-water::before {
+  content: "\e4b5"; }
+
+.fa-martini-glass::before {
+  content: "\f57b"; }
+
+.fa-glass-martini-alt::before {
+  content: "\f57b"; }
+
+.fa-rotate-left::before {
+  content: "\f2ea"; }
+
+.fa-rotate-back::before {
+  content: "\f2ea"; }
+
+.fa-rotate-backward::before {
+  content: "\f2ea"; }
+
+.fa-undo-alt::before {
+  content: "\f2ea"; }
+
+.fa-table-columns::before {
+  content: "\f0db"; }
+
+.fa-columns::before {
+  content: "\f0db"; }
+
+.fa-lemon::before {
+  content: "\f094"; }
+
+.fa-head-side-mask::before {
+  content: "\e063"; }
+
+.fa-handshake::before {
+  content: "\f2b5"; }
+
+.fa-gem::before {
+  content: "\f3a5"; }
+
+.fa-dolly::before {
+  content: "\f472"; }
+
+.fa-dolly-box::before {
+  content: "\f472"; }
+
+.fa-smoking::before {
+  content: "\f48d"; }
+
+.fa-minimize::before {
+  content: "\f78c"; }
+
+.fa-compress-arrows-alt::before {
+  content: "\f78c"; }
+
+.fa-monument::before {
+  content: "\f5a6"; }
+
+.fa-snowplow::before {
+  content: "\f7d2"; }
+
+.fa-angles-right::before {
+  content: "\f101"; }
+
+.fa-angle-double-right::before {
+  content: "\f101"; }
+
+.fa-cannabis::before {
+  content: "\f55f"; }
+
+.fa-circle-play::before {
+  content: "\f144"; }
+
+.fa-play-circle::before {
+  content: "\f144"; }
+
+.fa-tablets::before {
+  content: "\f490"; }
+
+.fa-ethernet::before {
+  content: "\f796"; }
+
+.fa-euro-sign::before {
+  content: "\f153"; }
+
+.fa-eur::before {
+  content: "\f153"; }
+
+.fa-euro::before {
+  content: "\f153"; }
+
+.fa-chair::before {
+  content: "\f6c0"; }
+
+.fa-circle-check::before {
+  content: "\f058"; }
+
+.fa-check-circle::before {
+  content: "\f058"; }
+
+.fa-circle-stop::before {
+  content: "\f28d"; }
+
+.fa-stop-circle::before {
+  content: "\f28d"; }
+
+.fa-compass-drafting::before {
+  content: "\f568"; }
+
+.fa-drafting-compass::before {
+  content: "\f568"; }
+
+.fa-plate-wheat::before {
+  content: "\e55a"; }
+
+.fa-icicles::before {
+  content: "\f7ad"; }
+
+.fa-person-shelter::before {
+  content: "\e54f"; }
+
+.fa-neuter::before {
+  content: "\f22c"; }
+
+.fa-id-badge::before {
+  content: "\f2c1"; }
+
+.fa-marker::before {
+  content: "\f5a1"; }
+
+.fa-face-laugh-beam::before {
+  content: "\f59a"; }
+
+.fa-laugh-beam::before {
+  content: "\f59a"; }
+
+.fa-helicopter-symbol::before {
+  content: "\e502"; }
+
+.fa-universal-access::before {
+  content: "\f29a"; }
+
+.fa-circle-chevron-up::before {
+  content: "\f139"; }
+
+.fa-chevron-circle-up::before {
+  content: "\f139"; }
+
+.fa-lari-sign::before {
+  content: "\e1c8"; }
+
+.fa-volcano::before {
+  content: "\f770"; }
+
+.fa-person-walking-dashed-line-arrow-right::before {
+  content: "\e553"; }
+
+.fa-sterling-sign::before {
+  content: "\f154"; }
+
+.fa-gbp::before {
+  content: "\f154"; }
+
+.fa-pound-sign::before {
+  content: "\f154"; }
+
+.fa-viruses::before {
+  content: "\e076"; }
+
+.fa-square-person-confined::before {
+  content: "\e577"; }
+
+.fa-user-tie::before {
+  content: "\f508"; }
+
+.fa-arrow-down-long::before {
+  content: "\f175"; }
+
+.fa-long-arrow-down::before {
+  content: "\f175"; }
+
+.fa-tent-arrow-down-to-line::before {
+  content: "\e57e"; }
+
+.fa-certificate::before {
+  content: "\f0a3"; }
+
+.fa-reply-all::before {
+  content: "\f122"; }
+
+.fa-mail-reply-all::before {
+  content: "\f122"; }
+
+.fa-suitcase::before {
+  content: "\f0f2"; }
+
+.fa-person-skating::before {
+  content: "\f7c5"; }
+
+.fa-skating::before {
+  content: "\f7c5"; }
+
+.fa-filter-circle-dollar::before {
+  content: "\f662"; }
+
+.fa-funnel-dollar::before {
+  content: "\f662"; }
+
+.fa-camera-retro::before {
+  content: "\f083"; }
+
+.fa-circle-arrow-down::before {
+  content: "\f0ab"; }
+
+.fa-arrow-circle-down::before {
+  content: "\f0ab"; }
+
+.fa-file-import::before {
+  content: "\f56f"; }
+
+.fa-arrow-right-to-file::before {
+  content: "\f56f"; }
+
+.fa-square-arrow-up-right::before {
+  content: "\f14c"; }
+
+.fa-external-link-square::before {
+  content: "\f14c"; }
+
+.fa-box-open::before {
+  content: "\f49e"; }
+
+.fa-scroll::before {
+  content: "\f70e"; }
+
+.fa-spa::before {
+  content: "\f5bb"; }
+
+.fa-location-pin-lock::before {
+  content: "\e51f"; }
+
+.fa-pause::before {
+  content: "\f04c"; }
+
+.fa-hill-avalanche::before {
+  content: "\e507"; }
+
+.fa-temperature-empty::before {
+  content: "\f2cb"; }
+
+.fa-temperature-0::before {
+  content: "\f2cb"; }
+
+.fa-thermometer-0::before {
+  content: "\f2cb"; }
+
+.fa-thermometer-empty::before {
+  content: "\f2cb"; }
+
+.fa-bomb::before {
+  content: "\f1e2"; }
+
+.fa-registered::before {
+  content: "\f25d"; }
+
+.fa-address-card::before {
+  content: "\f2bb"; }
+
+.fa-contact-card::before {
+  content: "\f2bb"; }
+
+.fa-vcard::before {
+  content: "\f2bb"; }
+
+.fa-scale-unbalanced-flip::before {
+  content: "\f516"; }
+
+.fa-balance-scale-right::before {
+  content: "\f516"; }
+
+.fa-subscript::before {
+  content: "\f12c"; }
+
+.fa-diamond-turn-right::before {
+  content: "\f5eb"; }
+
+.fa-directions::before {
+  content: "\f5eb"; }
+
+.fa-burst::before {
+  content: "\e4dc"; }
+
+.fa-house-laptop::before {
+  content: "\e066"; }
+
+.fa-laptop-house::before {
+  content: "\e066"; }
+
+.fa-face-tired::before {
+  content: "\f5c8"; }
+
+.fa-tired::before {
+  content: "\f5c8"; }
+
+.fa-money-bills::before {
+  content: "\e1f3"; }
+
+.fa-smog::before {
+  content: "\f75f"; }
+
+.fa-crutch::before {
+  content: "\f7f7"; }
+
+.fa-cloud-arrow-up::before {
+  content: "\f0ee"; }
+
+.fa-cloud-upload::before {
+  content: "\f0ee"; }
+
+.fa-cloud-upload-alt::before {
+  content: "\f0ee"; }
+
+.fa-palette::before {
+  content: "\f53f"; }
+
+.fa-arrows-turn-right::before {
+  content: "\e4c0"; }
+
+.fa-vest::before {
+  content: "\e085"; }
+
+.fa-ferry::before {
+  content: "\e4ea"; }
+
+.fa-arrows-down-to-people::before {
+  content: "\e4b9"; }
+
+.fa-seedling::before {
+  content: "\f4d8"; }
+
+.fa-sprout::before {
+  content: "\f4d8"; }
+
+.fa-left-right::before {
+  content: "\f337"; }
+
+.fa-arrows-alt-h::before {
+  content: "\f337"; }
+
+.fa-boxes-packing::before {
+  content: "\e4c7"; }
+
+.fa-circle-arrow-left::before {
+  content: "\f0a8"; }
+
+.fa-arrow-circle-left::before {
+  content: "\f0a8"; }
+
+.fa-group-arrows-rotate::before {
+  content: "\e4f6"; }
+
+.fa-bowl-food::before {
+  content: "\e4c6"; }
+
+.fa-candy-cane::before {
+  content: "\f786"; }
+
+.fa-arrow-down-wide-short::before {
+  content: "\f160"; }
+
+.fa-sort-amount-asc::before {
+  content: "\f160"; }
+
+.fa-sort-amount-down::before {
+  content: "\f160"; }
+
+.fa-cloud-bolt::before {
+  content: "\f76c"; }
+
+.fa-thunderstorm::before {
+  content: "\f76c"; }
+
+.fa-text-slash::before {
+  content: "\f87d"; }
+
+.fa-remove-format::before {
+  content: "\f87d"; }
+
+.fa-face-smile-wink::before {
+  content: "\f4da"; }
+
+.fa-smile-wink::before {
+  content: "\f4da"; }
+
+.fa-file-word::before {
+  content: "\f1c2"; }
+
+.fa-file-powerpoint::before {
+  content: "\f1c4"; }
+
+.fa-arrows-left-right::before {
+  content: "\f07e"; }
+
+.fa-arrows-h::before {
+  content: "\f07e"; }
+
+.fa-house-lock::before {
+  content: "\e510"; }
+
+.fa-cloud-arrow-down::before {
+  content: "\f0ed"; }
+
+.fa-cloud-download::before {
+  content: "\f0ed"; }
+
+.fa-cloud-download-alt::before {
+  content: "\f0ed"; }
+
+.fa-children::before {
+  content: "\e4e1"; }
+
+.fa-chalkboard::before {
+  content: "\f51b"; }
+
+.fa-blackboard::before {
+  content: "\f51b"; }
+
+.fa-user-large-slash::before {
+  content: "\f4fa"; }
+
+.fa-user-alt-slash::before {
+  content: "\f4fa"; }
+
+.fa-envelope-open::before {
+  content: "\f2b6"; }
+
+.fa-handshake-simple-slash::before {
+  content: "\e05f"; }
+
+.fa-handshake-alt-slash::before {
+  content: "\e05f"; }
+
+.fa-mattress-pillow::before {
+  content: "\e525"; }
+
+.fa-guarani-sign::before {
+  content: "\e19a"; }
+
+.fa-arrows-rotate::before {
+  content: "\f021"; }
+
+.fa-refresh::before {
+  content: "\f021"; }
+
+.fa-sync::before {
+  content: "\f021"; }
+
+.fa-fire-extinguisher::before {
+  content: "\f134"; }
+
+.fa-cruzeiro-sign::before {
+  content: "\e152"; }
+
+.fa-greater-than-equal::before {
+  content: "\f532"; }
+
+.fa-shield-halved::before {
+  content: "\f3ed"; }
+
+.fa-shield-alt::before {
+  content: "\f3ed"; }
+
+.fa-book-atlas::before {
+  content: "\f558"; }
+
+.fa-atlas::before {
+  content: "\f558"; }
+
+.fa-virus::before {
+  content: "\e074"; }
+
+.fa-envelope-circle-check::before {
+  content: "\e4e8"; }
+
+.fa-layer-group::before {
+  content: "\f5fd"; }
+
+.fa-arrows-to-dot::before {
+  content: "\e4be"; }
+
+.fa-archway::before {
+  content: "\f557"; }
+
+.fa-heart-circle-check::before {
+  content: "\e4fd"; }
+
+.fa-house-chimney-crack::before {
+  content: "\f6f1"; }
+
+.fa-house-damage::before {
+  content: "\f6f1"; }
+
+.fa-file-zipper::before {
+  content: "\f1c6"; }
+
+.fa-file-archive::before {
+  content: "\f1c6"; }
+
+.fa-square::before {
+  content: "\f0c8"; }
+
+.fa-martini-glass-empty::before {
+  content: "\f000"; }
+
+.fa-glass-martini::before {
+  content: "\f000"; }
+
+.fa-couch::before {
+  content: "\f4b8"; }
+
+.fa-cedi-sign::before {
+  content: "\e0df"; }
+
+.fa-italic::before {
+  content: "\f033"; }
+
+.fa-church::before {
+  content: "\f51d"; }
+
+.fa-comments-dollar::before {
+  content: "\f653"; }
+
+.fa-democrat::before {
+  content: "\f747"; }
+
+.fa-z::before {
+  content: "\5a"; }
+
+.fa-person-skiing::before {
+  content: "\f7c9"; }
+
+.fa-skiing::before {
+  content: "\f7c9"; }
+
+.fa-road-lock::before {
+  content: "\e567"; }
+
+.fa-a::before {
+  content: "\41"; }
+
+.fa-temperature-arrow-down::before {
+  content: "\e03f"; }
+
+.fa-temperature-down::before {
+  content: "\e03f"; }
+
+.fa-feather-pointed::before {
+  content: "\f56b"; }
+
+.fa-feather-alt::before {
+  content: "\f56b"; }
+
+.fa-p::before {
+  content: "\50"; }
+
+.fa-snowflake::before {
+  content: "\f2dc"; }
+
+.fa-newspaper::before {
+  content: "\f1ea"; }
+
+.fa-rectangle-ad::before {
+  content: "\f641"; }
+
+.fa-ad::before {
+  content: "\f641"; }
+
+.fa-circle-arrow-right::before {
+  content: "\f0a9"; }
+
+.fa-arrow-circle-right::before {
+  content: "\f0a9"; }
+
+.fa-filter-circle-xmark::before {
+  content: "\e17b"; }
+
+.fa-locust::before {
+  content: "\e520"; }
+
+.fa-sort::before {
+  content: "\f0dc"; }
+
+.fa-unsorted::before {
+  content: "\f0dc"; }
+
+.fa-list-ol::before {
+  content: "\f0cb"; }
+
+.fa-list-1-2::before {
+  content: "\f0cb"; }
+
+.fa-list-numeric::before {
+  content: "\f0cb"; }
+
+.fa-person-dress-burst::before {
+  content: "\e544"; }
+
+.fa-money-check-dollar::before {
+  content: "\f53d"; }
+
+.fa-money-check-alt::before {
+  content: "\f53d"; }
+
+.fa-vector-square::before {
+  content: "\f5cb"; }
+
+.fa-bread-slice::before {
+  content: "\f7ec"; }
+
+.fa-language::before {
+  content: "\f1ab"; }
+
+.fa-face-kiss-wink-heart::before {
+  content: "\f598"; }
+
+.fa-kiss-wink-heart::before {
+  content: "\f598"; }
+
+.fa-filter::before {
+  content: "\f0b0"; }
+
+.fa-question::before {
+  content: "\3f"; }
+
+.fa-file-signature::before {
+  content: "\f573"; }
+
+.fa-up-down-left-right::before {
+  content: "\f0b2"; }
+
+.fa-arrows-alt::before {
+  content: "\f0b2"; }
+
+.fa-house-chimney-user::before {
+  content: "\e065"; }
+
+.fa-hand-holding-heart::before {
+  content: "\f4be"; }
+
+.fa-puzzle-piece::before {
+  content: "\f12e"; }
+
+.fa-money-check::before {
+  content: "\f53c"; }
+
+.fa-star-half-stroke::before {
+  content: "\f5c0"; }
+
+.fa-star-half-alt::before {
+  content: "\f5c0"; }
+
+.fa-code::before {
+  content: "\f121"; }
+
+.fa-whiskey-glass::before {
+  content: "\f7a0"; }
+
+.fa-glass-whiskey::before {
+  content: "\f7a0"; }
+
+.fa-building-circle-exclamation::before {
+  content: "\e4d3"; }
+
+.fa-magnifying-glass-chart::before {
+  content: "\e522"; }
+
+.fa-arrow-up-right-from-square::before {
+  content: "\f08e"; }
+
+.fa-external-link::before {
+  content: "\f08e"; }
+
+.fa-cubes-stacked::before {
+  content: "\e4e6"; }
+
+.fa-won-sign::before {
+  content: "\f159"; }
+
+.fa-krw::before {
+  content: "\f159"; }
+
+.fa-won::before {
+  content: "\f159"; }
+
+.fa-virus-covid::before {
+  content: "\e4a8"; }
+
+.fa-austral-sign::before {
+  content: "\e0a9"; }
+
+.fa-f::before {
+  content: "\46"; }
+
+.fa-leaf::before {
+  content: "\f06c"; }
+
+.fa-road::before {
+  content: "\f018"; }
+
+.fa-taxi::before {
+  content: "\f1ba"; }
+
+.fa-cab::before {
+  content: "\f1ba"; }
+
+.fa-person-circle-plus::before {
+  content: "\e541"; }
+
+.fa-chart-pie::before {
+  content: "\f200"; }
+
+.fa-pie-chart::before {
+  content: "\f200"; }
+
+.fa-bolt-lightning::before {
+  content: "\e0b7"; }
+
+.fa-sack-xmark::before {
+  content: "\e56a"; }
+
+.fa-file-excel::before {
+  content: "\f1c3"; }
+
+.fa-file-contract::before {
+  content: "\f56c"; }
+
+.fa-fish-fins::before {
+  content: "\e4f2"; }
+
+.fa-building-flag::before {
+  content: "\e4d5"; }
+
+.fa-face-grin-beam::before {
+  content: "\f582"; }
+
+.fa-grin-beam::before {
+  content: "\f582"; }
+
+.fa-object-ungroup::before {
+  content: "\f248"; }
+
+.fa-poop::before {
+  content: "\f619"; }
+
+.fa-location-pin::before {
+  content: "\f041"; }
+
+.fa-map-marker::before {
+  content: "\f041"; }
+
+.fa-kaaba::before {
+  content: "\f66b"; }
+
+.fa-toilet-paper::before {
+  content: "\f71e"; }
+
+.fa-helmet-safety::before {
+  content: "\f807"; }
+
+.fa-hard-hat::before {
+  content: "\f807"; }
+
+.fa-hat-hard::before {
+  content: "\f807"; }
+
+.fa-eject::before {
+  content: "\f052"; }
+
+.fa-circle-right::before {
+  content: "\f35a"; }
+
+.fa-arrow-alt-circle-right::before {
+  content: "\f35a"; }
+
+.fa-plane-circle-check::before {
+  content: "\e555"; }
+
+.fa-face-rolling-eyes::before {
+  content: "\f5a5"; }
+
+.fa-meh-rolling-eyes::before {
+  content: "\f5a5"; }
+
+.fa-object-group::before {
+  content: "\f247"; }
+
+.fa-chart-line::before {
+  content: "\f201"; }
+
+.fa-line-chart::before {
+  content: "\f201"; }
+
+.fa-mask-ventilator::before {
+  content: "\e524"; }
+
+.fa-arrow-right::before {
+  content: "\f061"; }
+
+.fa-signs-post::before {
+  content: "\f277"; }
+
+.fa-map-signs::before {
+  content: "\f277"; }
+
+.fa-cash-register::before {
+  content: "\f788"; }
+
+.fa-person-circle-question::before {
+  content: "\e542"; }
+
+.fa-h::before {
+  content: "\48"; }
+
+.fa-tarp::before {
+  content: "\e57b"; }
+
+.fa-screwdriver-wrench::before {
+  content: "\f7d9"; }
+
+.fa-tools::before {
+  content: "\f7d9"; }
+
+.fa-arrows-to-eye::before {
+  content: "\e4bf"; }
+
+.fa-plug-circle-bolt::before {
+  content: "\e55b"; }
+
+.fa-heart::before {
+  content: "\f004"; }
+
+.fa-mars-and-venus::before {
+  content: "\f224"; }
+
+.fa-house-user::before {
+  content: "\e1b0"; }
+
+.fa-home-user::before {
+  content: "\e1b0"; }
+
+.fa-dumpster-fire::before {
+  content: "\f794"; }
+
+.fa-house-crack::before {
+  content: "\e3b1"; }
+
+.fa-martini-glass-citrus::before {
+  content: "\f561"; }
+
+.fa-cocktail::before {
+  content: "\f561"; }
+
+.fa-face-surprise::before {
+  content: "\f5c2"; }
+
+.fa-surprise::before {
+  content: "\f5c2"; }
+
+.fa-bottle-water::before {
+  content: "\e4c5"; }
+
+.fa-circle-pause::before {
+  content: "\f28b"; }
+
+.fa-pause-circle::before {
+  content: "\f28b"; }
+
+.fa-toilet-paper-slash::before {
+  content: "\e072"; }
+
+.fa-apple-whole::before {
+  content: "\f5d1"; }
+
+.fa-apple-alt::before {
+  content: "\f5d1"; }
+
+.fa-kitchen-set::before {
+  content: "\e51a"; }
+
+.fa-r::before {
+  content: "\52"; }
+
+.fa-temperature-quarter::before {
+  content: "\f2ca"; }
+
+.fa-temperature-1::before {
+  content: "\f2ca"; }
+
+.fa-thermometer-1::before {
+  content: "\f2ca"; }
+
+.fa-thermometer-quarter::before {
+  content: "\f2ca"; }
+
+.fa-cube::before {
+  content: "\f1b2"; }
+
+.fa-bitcoin-sign::before {
+  content: "\e0b4"; }
+
+.fa-shield-dog::before {
+  content: "\e573"; }
+
+.fa-solar-panel::before {
+  content: "\f5ba"; }
+
+.fa-lock-open::before {
+  content: "\f3c1"; }
+
+.fa-elevator::before {
+  content: "\e16d"; }
+
+.fa-money-bill-transfer::before {
+  content: "\e528"; }
+
+.fa-money-bill-trend-up::before {
+  content: "\e529"; }
+
+.fa-house-flood-water-circle-arrow-right::before {
+  content: "\e50f"; }
+
+.fa-square-poll-horizontal::before {
+  content: "\f682"; }
+
+.fa-poll-h::before {
+  content: "\f682"; }
+
+.fa-circle::before {
+  content: "\f111"; }
+
+.fa-backward-fast::before {
+  content: "\f049"; }
+
+.fa-fast-backward::before {
+  content: "\f049"; }
+
+.fa-recycle::before {
+  content: "\f1b8"; }
+
+.fa-user-astronaut::before {
+  content: "\f4fb"; }
+
+.fa-plane-slash::before {
+  content: "\e069"; }
+
+.fa-trademark::before {
+  content: "\f25c"; }
+
+.fa-basketball::before {
+  content: "\f434"; }
+
+.fa-basketball-ball::before {
+  content: "\f434"; }
+
+.fa-satellite-dish::before {
+  content: "\f7c0"; }
+
+.fa-circle-up::before {
+  content: "\f35b"; }
+
+.fa-arrow-alt-circle-up::before {
+  content: "\f35b"; }
+
+.fa-mobile-screen-button::before {
+  content: "\f3cd"; }
+
+.fa-mobile-alt::before {
+  content: "\f3cd"; }
+
+.fa-volume-high::before {
+  content: "\f028"; }
+
+.fa-volume-up::before {
+  content: "\f028"; }
+
+.fa-users-rays::before {
+  content: "\e593"; }
+
+.fa-wallet::before {
+  content: "\f555"; }
+
+.fa-clipboard-check::before {
+  content: "\f46c"; }
+
+.fa-file-audio::before {
+  content: "\f1c7"; }
+
+.fa-burger::before {
+  content: "\f805"; }
+
+.fa-hamburger::before {
+  content: "\f805"; }
+
+.fa-wrench::before {
+  content: "\f0ad"; }
+
+.fa-bugs::before {
+  content: "\e4d0"; }
+
+.fa-rupee-sign::before {
+  content: "\f156"; }
+
+.fa-rupee::before {
+  content: "\f156"; }
+
+.fa-file-image::before {
+  content: "\f1c5"; }
+
+.fa-circle-question::before {
+  content: "\f059"; }
+
+.fa-question-circle::before {
+  content: "\f059"; }
+
+.fa-plane-departure::before {
+  content: "\f5b0"; }
+
+.fa-handshake-slash::before {
+  content: "\e060"; }
+
+.fa-book-bookmark::before {
+  content: "\e0bb"; }
+
+.fa-code-branch::before {
+  content: "\f126"; }
+
+.fa-hat-cowboy::before {
+  content: "\f8c0"; }
+
+.fa-bridge::before {
+  content: "\e4c8"; }
+
+.fa-phone-flip::before {
+  content: "\f879"; }
+
+.fa-phone-alt::before {
+  content: "\f879"; }
+
+.fa-truck-front::before {
+  content: "\e2b7"; }
+
+.fa-cat::before {
+  content: "\f6be"; }
+
+.fa-anchor-circle-exclamation::before {
+  content: "\e4ab"; }
+
+.fa-truck-field::before {
+  content: "\e58d"; }
+
+.fa-route::before {
+  content: "\f4d7"; }
+
+.fa-clipboard-question::before {
+  content: "\e4e3"; }
+
+.fa-panorama::before {
+  content: "\e209"; }
+
+.fa-comment-medical::before {
+  content: "\f7f5"; }
+
+.fa-teeth-open::before {
+  content: "\f62f"; }
+
+.fa-file-circle-minus::before {
+  content: "\e4ed"; }
+
+.fa-tags::before {
+  content: "\f02c"; }
+
+.fa-wine-glass::before {
+  content: "\f4e3"; }
+
+.fa-forward-fast::before {
+  content: "\f050"; }
+
+.fa-fast-forward::before {
+  content: "\f050"; }
+
+.fa-face-meh-blank::before {
+  content: "\f5a4"; }
+
+.fa-meh-blank::before {
+  content: "\f5a4"; }
+
+.fa-square-parking::before {
+  content: "\f540"; }
+
+.fa-parking::before {
+  content: "\f540"; }
+
+.fa-house-signal::before {
+  content: "\e012"; }
+
+.fa-bars-progress::before {
+  content: "\f828"; }
+
+.fa-tasks-alt::before {
+  content: "\f828"; }
+
+.fa-faucet-drip::before {
+  content: "\e006"; }
+
+.fa-cart-flatbed::before {
+  content: "\f474"; }
+
+.fa-dolly-flatbed::before {
+  content: "\f474"; }
+
+.fa-ban-smoking::before {
+  content: "\f54d"; }
+
+.fa-smoking-ban::before {
+  content: "\f54d"; }
+
+.fa-terminal::before {
+  content: "\f120"; }
+
+.fa-mobile-button::before {
+  content: "\f10b"; }
+
+.fa-house-medical-flag::before {
+  content: "\e514"; }
+
+.fa-basket-shopping::before {
+  content: "\f291"; }
+
+.fa-shopping-basket::before {
+  content: "\f291"; }
+
+.fa-tape::before {
+  content: "\f4db"; }
+
+.fa-bus-simple::before {
+  content: "\f55e"; }
+
+.fa-bus-alt::before {
+  content: "\f55e"; }
+
+.fa-eye::before {
+  content: "\f06e"; }
+
+.fa-face-sad-cry::before {
+  content: "\f5b3"; }
+
+.fa-sad-cry::before {
+  content: "\f5b3"; }
+
+.fa-audio-description::before {
+  content: "\f29e"; }
+
+.fa-person-military-to-person::before {
+  content: "\e54c"; }
+
+.fa-file-shield::before {
+  content: "\e4f0"; }
+
+.fa-user-slash::before {
+  content: "\f506"; }
+
+.fa-pen::before {
+  content: "\f304"; }
+
+.fa-tower-observation::before {
+  content: "\e586"; }
+
+.fa-file-code::before {
+  content: "\f1c9"; }
+
+.fa-signal::before {
+  content: "\f012"; }
+
+.fa-signal-5::before {
+  content: "\f012"; }
+
+.fa-signal-perfect::before {
+  content: "\f012"; }
+
+.fa-bus::before {
+  content: "\f207"; }
+
+.fa-heart-circle-xmark::before {
+  content: "\e501"; }
+
+.fa-house-chimney::before {
+  content: "\e3af"; }
+
+.fa-home-lg::before {
+  content: "\e3af"; }
+
+.fa-window-maximize::before {
+  content: "\f2d0"; }
+
+.fa-face-frown::before {
+  content: "\f119"; }
+
+.fa-frown::before {
+  content: "\f119"; }
+
+.fa-prescription::before {
+  content: "\f5b1"; }
+
+.fa-shop::before {
+  content: "\f54f"; }
+
+.fa-store-alt::before {
+  content: "\f54f"; }
+
+.fa-floppy-disk::before {
+  content: "\f0c7"; }
+
+.fa-save::before {
+  content: "\f0c7"; }
+
+.fa-vihara::before {
+  content: "\f6a7"; }
+
+.fa-scale-unbalanced::before {
+  content: "\f515"; }
+
+.fa-balance-scale-left::before {
+  content: "\f515"; }
+
+.fa-sort-up::before {
+  content: "\f0de"; }
+
+.fa-sort-asc::before {
+  content: "\f0de"; }
+
+.fa-comment-dots::before {
+  content: "\f4ad"; }
+
+.fa-commenting::before {
+  content: "\f4ad"; }
+
+.fa-plant-wilt::before {
+  content: "\e5aa"; }
+
+.fa-diamond::before {
+  content: "\f219"; }
+
+.fa-face-grin-squint::before {
+  content: "\f585"; }
+
+.fa-grin-squint::before {
+  content: "\f585"; }
+
+.fa-hand-holding-dollar::before {
+  content: "\f4c0"; }
+
+.fa-hand-holding-usd::before {
+  content: "\f4c0"; }
+
+.fa-bacterium::before {
+  content: "\e05a"; }
+
+.fa-hand-pointer::before {
+  content: "\f25a"; }
+
+.fa-drum-steelpan::before {
+  content: "\f56a"; }
+
+.fa-hand-scissors::before {
+  content: "\f257"; }
+
+.fa-hands-praying::before {
+  content: "\f684"; }
+
+.fa-praying-hands::before {
+  content: "\f684"; }
+
+.fa-arrow-rotate-right::before {
+  content: "\f01e"; }
+
+.fa-arrow-right-rotate::before {
+  content: "\f01e"; }
+
+.fa-arrow-rotate-forward::before {
+  content: "\f01e"; }
+
+.fa-redo::before {
+  content: "\f01e"; }
+
+.fa-biohazard::before {
+  content: "\f780"; }
+
+.fa-location-crosshairs::before {
+  content: "\f601"; }
+
+.fa-location::before {
+  content: "\f601"; }
+
+.fa-mars-double::before {
+  content: "\f227"; }
+
+.fa-child-dress::before {
+  content: "\e59c"; }
+
+.fa-users-between-lines::before {
+  content: "\e591"; }
+
+.fa-lungs-virus::before {
+  content: "\e067"; }
+
+.fa-face-grin-tears::before {
+  content: "\f588"; }
+
+.fa-grin-tears::before {
+  content: "\f588"; }
+
+.fa-phone::before {
+  content: "\f095"; }
+
+.fa-calendar-xmark::before {
+  content: "\f273"; }
+
+.fa-calendar-times::before {
+  content: "\f273"; }
+
+.fa-child-reaching::before {
+  content: "\e59d"; }
+
+.fa-head-side-virus::before {
+  content: "\e064"; }
+
+.fa-user-gear::before {
+  content: "\f4fe"; }
+
+.fa-user-cog::before {
+  content: "\f4fe"; }
+
+.fa-arrow-up-1-9::before {
+  content: "\f163"; }
+
+.fa-sort-numeric-up::before {
+  content: "\f163"; }
+
+.fa-door-closed::before {
+  content: "\f52a"; }
+
+.fa-shield-virus::before {
+  content: "\e06c"; }
+
+.fa-dice-six::before {
+  content: "\f526"; }
+
+.fa-mosquito-net::before {
+  content: "\e52c"; }
+
+.fa-bridge-water::before {
+  content: "\e4ce"; }
+
+.fa-person-booth::before {
+  content: "\f756"; }
+
+.fa-text-width::before {
+  content: "\f035"; }
+
+.fa-hat-wizard::before {
+  content: "\f6e8"; }
+
+.fa-pen-fancy::before {
+  content: "\f5ac"; }
+
+.fa-person-digging::before {
+  content: "\f85e"; }
+
+.fa-digging::before {
+  content: "\f85e"; }
+
+.fa-trash::before {
+  content: "\f1f8"; }
+
+.fa-gauge-simple::before {
+  content: "\f629"; }
+
+.fa-gauge-simple-med::before {
+  content: "\f629"; }
+
+.fa-tachometer-average::before {
+  content: "\f629"; }
+
+.fa-book-medical::before {
+  content: "\f7e6"; }
+
+.fa-poo::before {
+  content: "\f2fe"; }
+
+.fa-quote-right::before {
+  content: "\f10e"; }
+
+.fa-quote-right-alt::before {
+  content: "\f10e"; }
+
+.fa-shirt::before {
+  content: "\f553"; }
+
+.fa-t-shirt::before {
+  content: "\f553"; }
+
+.fa-tshirt::before {
+  content: "\f553"; }
+
+.fa-cubes::before {
+  content: "\f1b3"; }
+
+.fa-divide::before {
+  content: "\f529"; }
+
+.fa-tenge-sign::before {
+  content: "\f7d7"; }
+
+.fa-tenge::before {
+  content: "\f7d7"; }
+
+.fa-headphones::before {
+  content: "\f025"; }
+
+.fa-hands-holding::before {
+  content: "\f4c2"; }
+
+.fa-hands-clapping::before {
+  content: "\e1a8"; }
+
+.fa-republican::before {
+  content: "\f75e"; }
+
+.fa-arrow-left::before {
+  content: "\f060"; }
+
+.fa-person-circle-xmark::before {
+  content: "\e543"; }
+
+.fa-ruler::before {
+  content: "\f545"; }
+
+.fa-align-left::before {
+  content: "\f036"; }
+
+.fa-dice-d6::before {
+  content: "\f6d1"; }
+
+.fa-restroom::before {
+  content: "\f7bd"; }
+
+.fa-j::before {
+  content: "\4a"; }
+
+.fa-users-viewfinder::before {
+  content: "\e595"; }
+
+.fa-file-video::before {
+  content: "\f1c8"; }
+
+.fa-up-right-from-square::before {
+  content: "\f35d"; }
+
+.fa-external-link-alt::before {
+  content: "\f35d"; }
+
+.fa-table-cells::before {
+  content: "\f00a"; }
+
+.fa-th::before {
+  content: "\f00a"; }
+
+.fa-file-pdf::before {
+  content: "\f1c1"; }
+
+.fa-book-bible::before {
+  content: "\f647"; }
+
+.fa-bible::before {
+  content: "\f647"; }
+
+.fa-o::before {
+  content: "\4f"; }
+
+.fa-suitcase-medical::before {
+  content: "\f0fa"; }
+
+.fa-medkit::before {
+  content: "\f0fa"; }
+
+.fa-user-secret::before {
+  content: "\f21b"; }
+
+.fa-otter::before {
+  content: "\f700"; }
+
+.fa-person-dress::before {
+  content: "\f182"; }
+
+.fa-female::before {
+  content: "\f182"; }
+
+.fa-comment-dollar::before {
+  content: "\f651"; }
+
+.fa-business-time::before {
+  content: "\f64a"; }
+
+.fa-briefcase-clock::before {
+  content: "\f64a"; }
+
+.fa-table-cells-large::before {
+  content: "\f009"; }
+
+.fa-th-large::before {
+  content: "\f009"; }
+
+.fa-book-tanakh::before {
+  content: "\f827"; }
+
+.fa-tanakh::before {
+  content: "\f827"; }
+
+.fa-phone-volume::before {
+  content: "\f2a0"; }
+
+.fa-volume-control-phone::before {
+  content: "\f2a0"; }
+
+.fa-hat-cowboy-side::before {
+  content: "\f8c1"; }
+
+.fa-clipboard-user::before {
+  content: "\f7f3"; }
+
+.fa-child::before {
+  content: "\f1ae"; }
+
+.fa-lira-sign::before {
+  content: "\f195"; }
+
+.fa-satellite::before {
+  content: "\f7bf"; }
+
+.fa-plane-lock::before {
+  content: "\e558"; }
+
+.fa-tag::before {
+  content: "\f02b"; }
+
+.fa-comment::before {
+  content: "\f075"; }
+
+.fa-cake-candles::before {
+  content: "\f1fd"; }
+
+.fa-birthday-cake::before {
+  content: "\f1fd"; }
+
+.fa-cake::before {
+  content: "\f1fd"; }
+
+.fa-envelope::before {
+  content: "\f0e0"; }
+
+.fa-angles-up::before {
+  content: "\f102"; }
+
+.fa-angle-double-up::before {
+  content: "\f102"; }
+
+.fa-paperclip::before {
+  content: "\f0c6"; }
+
+.fa-arrow-right-to-city::before {
+  content: "\e4b3"; }
+
+.fa-ribbon::before {
+  content: "\f4d6"; }
+
+.fa-lungs::before {
+  content: "\f604"; }
+
+.fa-arrow-up-9-1::before {
+  content: "\f887"; }
+
+.fa-sort-numeric-up-alt::before {
+  content: "\f887"; }
+
+.fa-litecoin-sign::before {
+  content: "\e1d3"; }
+
+.fa-border-none::before {
+  content: "\f850"; }
+
+.fa-circle-nodes::before {
+  content: "\e4e2"; }
+
+.fa-parachute-box::before {
+  content: "\f4cd"; }
+
+.fa-indent::before {
+  content: "\f03c"; }
+
+.fa-truck-field-un::before {
+  content: "\e58e"; }
+
+.fa-hourglass::before {
+  content: "\f254"; }
+
+.fa-hourglass-empty::before {
+  content: "\f254"; }
+
+.fa-mountain::before {
+  content: "\f6fc"; }
+
+.fa-user-doctor::before {
+  content: "\f0f0"; }
+
+.fa-user-md::before {
+  content: "\f0f0"; }
+
+.fa-circle-info::before {
+  content: "\f05a"; }
+
+.fa-info-circle::before {
+  content: "\f05a"; }
+
+.fa-cloud-meatball::before {
+  content: "\f73b"; }
+
+.fa-camera::before {
+  content: "\f030"; }
+
+.fa-camera-alt::before {
+  content: "\f030"; }
+
+.fa-square-virus::before {
+  content: "\e578"; }
+
+.fa-meteor::before {
+  content: "\f753"; }
+
+.fa-car-on::before {
+  content: "\e4dd"; }
+
+.fa-sleigh::before {
+  content: "\f7cc"; }
+
+.fa-arrow-down-1-9::before {
+  content: "\f162"; }
+
+.fa-sort-numeric-asc::before {
+  content: "\f162"; }
+
+.fa-sort-numeric-down::before {
+  content: "\f162"; }
+
+.fa-hand-holding-droplet::before {
+  content: "\f4c1"; }
+
+.fa-hand-holding-water::before {
+  content: "\f4c1"; }
+
+.fa-water::before {
+  content: "\f773"; }
+
+.fa-calendar-check::before {
+  content: "\f274"; }
+
+.fa-braille::before {
+  content: "\f2a1"; }
+
+.fa-prescription-bottle-medical::before {
+  content: "\f486"; }
+
+.fa-prescription-bottle-alt::before {
+  content: "\f486"; }
+
+.fa-landmark::before {
+  content: "\f66f"; }
+
+.fa-truck::before {
+  content: "\f0d1"; }
+
+.fa-crosshairs::before {
+  content: "\f05b"; }
+
+.fa-person-cane::before {
+  content: "\e53c"; }
+
+.fa-tent::before {
+  content: "\e57d"; }
+
+.fa-vest-patches::before {
+  content: "\e086"; }
+
+.fa-check-double::before {
+  content: "\f560"; }
+
+.fa-arrow-down-a-z::before {
+  content: "\f15d"; }
+
+.fa-sort-alpha-asc::before {
+  content: "\f15d"; }
+
+.fa-sort-alpha-down::before {
+  content: "\f15d"; }
+
+.fa-money-bill-wheat::before {
+  content: "\e52a"; }
+
+.fa-cookie::before {
+  content: "\f563"; }
+
+.fa-arrow-rotate-left::before {
+  content: "\f0e2"; }
+
+.fa-arrow-left-rotate::before {
+  content: "\f0e2"; }
+
+.fa-arrow-rotate-back::before {
+  content: "\f0e2"; }
+
+.fa-arrow-rotate-backward::before {
+  content: "\f0e2"; }
+
+.fa-undo::before {
+  content: "\f0e2"; }
+
+.fa-hard-drive::before {
+  content: "\f0a0"; }
+
+.fa-hdd::before {
+  content: "\f0a0"; }
+
+.fa-face-grin-squint-tears::before {
+  content: "\f586"; }
+
+.fa-grin-squint-tears::before {
+  content: "\f586"; }
+
+.fa-dumbbell::before {
+  content: "\f44b"; }
+
+.fa-rectangle-list::before {
+  content: "\f022"; }
+
+.fa-list-alt::before {
+  content: "\f022"; }
+
+.fa-tarp-droplet::before {
+  content: "\e57c"; }
+
+.fa-house-medical-circle-check::before {
+  content: "\e511"; }
+
+.fa-person-skiing-nordic::before {
+  content: "\f7ca"; }
+
+.fa-skiing-nordic::before {
+  content: "\f7ca"; }
+
+.fa-calendar-plus::before {
+  content: "\f271"; }
+
+.fa-plane-arrival::before {
+  content: "\f5af"; }
+
+.fa-circle-left::before {
+  content: "\f359"; }
+
+.fa-arrow-alt-circle-left::before {
+  content: "\f359"; }
+
+.fa-train-subway::before {
+  content: "\f239"; }
+
+.fa-subway::before {
+  content: "\f239"; }
+
+.fa-chart-gantt::before {
+  content: "\e0e4"; }
+
+.fa-indian-rupee-sign::before {
+  content: "\e1bc"; }
+
+.fa-indian-rupee::before {
+  content: "\e1bc"; }
+
+.fa-inr::before {
+  content: "\e1bc"; }
+
+.fa-crop-simple::before {
+  content: "\f565"; }
+
+.fa-crop-alt::before {
+  content: "\f565"; }
+
+.fa-money-bill-1::before {
+  content: "\f3d1"; }
+
+.fa-money-bill-alt::before {
+  content: "\f3d1"; }
+
+.fa-left-long::before {
+  content: "\f30a"; }
+
+.fa-long-arrow-alt-left::before {
+  content: "\f30a"; }
+
+.fa-dna::before {
+  content: "\f471"; }
+
+.fa-virus-slash::before {
+  content: "\e075"; }
+
+.fa-minus::before {
+  content: "\f068"; }
+
+.fa-subtract::before {
+  content: "\f068"; }
+
+.fa-chess::before {
+  content: "\f439"; }
+
+.fa-arrow-left-long::before {
+  content: "\f177"; }
+
+.fa-long-arrow-left::before {
+  content: "\f177"; }
+
+.fa-plug-circle-check::before {
+  content: "\e55c"; }
+
+.fa-street-view::before {
+  content: "\f21d"; }
+
+.fa-franc-sign::before {
+  content: "\e18f"; }
+
+.fa-volume-off::before {
+  content: "\f026"; }
+
+.fa-hands-asl-interpreting::before {
+  content: "\f2a3"; }
+
+.fa-american-sign-language-interpreting::before {
+  content: "\f2a3"; }
+
+.fa-asl-interpreting::before {
+  content: "\f2a3"; }
+
+.fa-hands-american-sign-language-interpreting::before {
+  content: "\f2a3"; }
+
+.fa-gear::before {
+  content: "\f013"; }
+
+.fa-cog::before {
+  content: "\f013"; }
+
+.fa-droplet-slash::before {
+  content: "\f5c7"; }
+
+.fa-tint-slash::before {
+  content: "\f5c7"; }
+
+.fa-mosque::before {
+  content: "\f678"; }
+
+.fa-mosquito::before {
+  content: "\e52b"; }
+
+.fa-star-of-david::before {
+  content: "\f69a"; }
+
+.fa-person-military-rifle::before {
+  content: "\e54b"; }
+
+.fa-cart-shopping::before {
+  content: "\f07a"; }
+
+.fa-shopping-cart::before {
+  content: "\f07a"; }
+
+.fa-vials::before {
+  content: "\f493"; }
+
+.fa-plug-circle-plus::before {
+  content: "\e55f"; }
+
+.fa-place-of-worship::before {
+  content: "\f67f"; }
+
+.fa-grip-vertical::before {
+  content: "\f58e"; }
+
+.fa-arrow-turn-up::before {
+  content: "\f148"; }
+
+.fa-level-up::before {
+  content: "\f148"; }
+
+.fa-u::before {
+  content: "\55"; }
+
+.fa-square-root-variable::before {
+  content: "\f698"; }
+
+.fa-square-root-alt::before {
+  content: "\f698"; }
+
+.fa-clock::before {
+  content: "\f017"; }
+
+.fa-clock-four::before {
+  content: "\f017"; }
+
+.fa-backward-step::before {
+  content: "\f048"; }
+
+.fa-step-backward::before {
+  content: "\f048"; }
+
+.fa-pallet::before {
+  content: "\f482"; }
+
+.fa-faucet::before {
+  content: "\e005"; }
+
+.fa-baseball-bat-ball::before {
+  content: "\f432"; }
+
+.fa-s::before {
+  content: "\53"; }
+
+.fa-timeline::before {
+  content: "\e29c"; }
+
+.fa-keyboard::before {
+  content: "\f11c"; }
+
+.fa-caret-down::before {
+  content: "\f0d7"; }
+
+.fa-house-chimney-medical::before {
+  content: "\f7f2"; }
+
+.fa-clinic-medical::before {
+  content: "\f7f2"; }
+
+.fa-temperature-three-quarters::before {
+  content: "\f2c8"; }
+
+.fa-temperature-3::before {
+  content: "\f2c8"; }
+
+.fa-thermometer-3::before {
+  content: "\f2c8"; }
+
+.fa-thermometer-three-quarters::before {
+  content: "\f2c8"; }
+
+.fa-mobile-screen::before {
+  content: "\f3cf"; }
+
+.fa-mobile-android-alt::before {
+  content: "\f3cf"; }
+
+.fa-plane-up::before {
+  content: "\e22d"; }
+
+.fa-piggy-bank::before {
+  content: "\f4d3"; }
+
+.fa-battery-half::before {
+  content: "\f242"; }
+
+.fa-battery-3::before {
+  content: "\f242"; }
+
+.fa-mountain-city::before {
+  content: "\e52e"; }
+
+.fa-coins::before {
+  content: "\f51e"; }
+
+.fa-khanda::before {
+  content: "\f66d"; }
+
+.fa-sliders::before {
+  content: "\f1de"; }
+
+.fa-sliders-h::before {
+  content: "\f1de"; }
+
+.fa-folder-tree::before {
+  content: "\f802"; }
+
+.fa-network-wired::before {
+  content: "\f6ff"; }
+
+.fa-map-pin::before {
+  content: "\f276"; }
+
+.fa-hamsa::before {
+  content: "\f665"; }
+
+.fa-cent-sign::before {
+  content: "\e3f5"; }
+
+.fa-flask::before {
+  content: "\f0c3"; }
+
+.fa-person-pregnant::before {
+  content: "\e31e"; }
+
+.fa-wand-sparkles::before {
+  content: "\f72b"; }
+
+.fa-ellipsis-vertical::before {
+  content: "\f142"; }
+
+.fa-ellipsis-v::before {
+  content: "\f142"; }
+
+.fa-ticket::before {
+  content: "\f145"; }
+
+.fa-power-off::before {
+  content: "\f011"; }
+
+.fa-right-long::before {
+  content: "\f30b"; }
+
+.fa-long-arrow-alt-right::before {
+  content: "\f30b"; }
+
+.fa-flag-usa::before {
+  content: "\f74d"; }
+
+.fa-laptop-file::before {
+  content: "\e51d"; }
+
+.fa-tty::before {
+  content: "\f1e4"; }
+
+.fa-teletype::before {
+  content: "\f1e4"; }
+
+.fa-diagram-next::before {
+  content: "\e476"; }
+
+.fa-person-rifle::before {
+  content: "\e54e"; }
+
+.fa-house-medical-circle-exclamation::before {
+  content: "\e512"; }
+
+.fa-closed-captioning::before {
+  content: "\f20a"; }
+
+.fa-person-hiking::before {
+  content: "\f6ec"; }
+
+.fa-hiking::before {
+  content: "\f6ec"; }
+
+.fa-venus-double::before {
+  content: "\f226"; }
+
+.fa-images::before {
+  content: "\f302"; }
+
+.fa-calculator::before {
+  content: "\f1ec"; }
+
+.fa-people-pulling::before {
+  content: "\e535"; }
+
+.fa-n::before {
+  content: "\4e"; }
+
+.fa-cable-car::before {
+  content: "\f7da"; }
+
+.fa-tram::before {
+  content: "\f7da"; }
+
+.fa-cloud-rain::before {
+  content: "\f73d"; }
+
+.fa-building-circle-xmark::before {
+  content: "\e4d4"; }
+
+.fa-ship::before {
+  content: "\f21a"; }
+
+.fa-arrows-down-to-line::before {
+  content: "\e4b8"; }
+
+.fa-download::before {
+  content: "\f019"; }
+
+.fa-face-grin::before {
+  content: "\f580"; }
+
+.fa-grin::before {
+  content: "\f580"; }
+
+.fa-delete-left::before {
+  content: "\f55a"; }
+
+.fa-backspace::before {
+  content: "\f55a"; }
+
+.fa-eye-dropper::before {
+  content: "\f1fb"; }
+
+.fa-eye-dropper-empty::before {
+  content: "\f1fb"; }
+
+.fa-eyedropper::before {
+  content: "\f1fb"; }
+
+.fa-file-circle-check::before {
+  content: "\e5a0"; }
+
+.fa-forward::before {
+  content: "\f04e"; }
+
+.fa-mobile::before {
+  content: "\f3ce"; }
+
+.fa-mobile-android::before {
+  content: "\f3ce"; }
+
+.fa-mobile-phone::before {
+  content: "\f3ce"; }
+
+.fa-face-meh::before {
+  content: "\f11a"; }
+
+.fa-meh::before {
+  content: "\f11a"; }
+
+.fa-align-center::before {
+  content: "\f037"; }
+
+.fa-book-skull::before {
+  content: "\f6b7"; }
+
+.fa-book-dead::before {
+  content: "\f6b7"; }
+
+.fa-id-card::before {
+  content: "\f2c2"; }
+
+.fa-drivers-license::before {
+  content: "\f2c2"; }
+
+.fa-outdent::before {
+  content: "\f03b"; }
+
+.fa-dedent::before {
+  content: "\f03b"; }
+
+.fa-heart-circle-exclamation::before {
+  content: "\e4fe"; }
+
+.fa-house::before {
+  content: "\f015"; }
+
+.fa-home::before {
+  content: "\f015"; }
+
+.fa-home-alt::before {
+  content: "\f015"; }
+
+.fa-home-lg-alt::before {
+  content: "\f015"; }
+
+.fa-calendar-week::before {
+  content: "\f784"; }
+
+.fa-laptop-medical::before {
+  content: "\f812"; }
+
+.fa-b::before {
+  content: "\42"; }
+
+.fa-file-medical::before {
+  content: "\f477"; }
+
+.fa-dice-one::before {
+  content: "\f525"; }
+
+.fa-kiwi-bird::before {
+  content: "\f535"; }
+
+.fa-arrow-right-arrow-left::before {
+  content: "\f0ec"; }
+
+.fa-exchange::before {
+  content: "\f0ec"; }
+
+.fa-rotate-right::before {
+  content: "\f2f9"; }
+
+.fa-redo-alt::before {
+  content: "\f2f9"; }
+
+.fa-rotate-forward::before {
+  content: "\f2f9"; }
+
+.fa-utensils::before {
+  content: "\f2e7"; }
+
+.fa-cutlery::before {
+  content: "\f2e7"; }
+
+.fa-arrow-up-wide-short::before {
+  content: "\f161"; }
+
+.fa-sort-amount-up::before {
+  content: "\f161"; }
+
+.fa-mill-sign::before {
+  content: "\e1ed"; }
+
+.fa-bowl-rice::before {
+  content: "\e2eb"; }
+
+.fa-skull::before {
+  content: "\f54c"; }
+
+.fa-tower-broadcast::before {
+  content: "\f519"; }
+
+.fa-broadcast-tower::before {
+  content: "\f519"; }
+
+.fa-truck-pickup::before {
+  content: "\f63c"; }
+
+.fa-up-long::before {
+  content: "\f30c"; }
+
+.fa-long-arrow-alt-up::before {
+  content: "\f30c"; }
+
+.fa-stop::before {
+  content: "\f04d"; }
+
+.fa-code-merge::before {
+  content: "\f387"; }
+
+.fa-upload::before {
+  content: "\f093"; }
+
+.fa-hurricane::before {
+  content: "\f751"; }
+
+.fa-mound::before {
+  content: "\e52d"; }
+
+.fa-toilet-portable::before {
+  content: "\e583"; }
+
+.fa-compact-disc::before {
+  content: "\f51f"; }
+
+.fa-file-arrow-down::before {
+  content: "\f56d"; }
+
+.fa-file-download::before {
+  content: "\f56d"; }
+
+.fa-caravan::before {
+  content: "\f8ff"; }
+
+.fa-shield-cat::before {
+  content: "\e572"; }
+
+.fa-bolt::before {
+  content: "\f0e7"; }
+
+.fa-zap::before {
+  content: "\f0e7"; }
+
+.fa-glass-water::before {
+  content: "\e4f4"; }
+
+.fa-oil-well::before {
+  content: "\e532"; }
+
+.fa-vault::before {
+  content: "\e2c5"; }
+
+.fa-mars::before {
+  content: "\f222"; }
+
+.fa-toilet::before {
+  content: "\f7d8"; }
+
+.fa-plane-circle-xmark::before {
+  content: "\e557"; }
+
+.fa-yen-sign::before {
+  content: "\f157"; }
+
+.fa-cny::before {
+  content: "\f157"; }
+
+.fa-jpy::before {
+  content: "\f157"; }
+
+.fa-rmb::before {
+  content: "\f157"; }
+
+.fa-yen::before {
+  content: "\f157"; }
+
+.fa-ruble-sign::before {
+  content: "\f158"; }
+
+.fa-rouble::before {
+  content: "\f158"; }
+
+.fa-rub::before {
+  content: "\f158"; }
+
+.fa-ruble::before {
+  content: "\f158"; }
+
+.fa-sun::before {
+  content: "\f185"; }
+
+.fa-guitar::before {
+  content: "\f7a6"; }
+
+.fa-face-laugh-wink::before {
+  content: "\f59c"; }
+
+.fa-laugh-wink::before {
+  content: "\f59c"; }
+
+.fa-horse-head::before {
+  content: "\f7ab"; }
+
+.fa-bore-hole::before {
+  content: "\e4c3"; }
+
+.fa-industry::before {
+  content: "\f275"; }
+
+.fa-circle-down::before {
+  content: "\f358"; }
+
+.fa-arrow-alt-circle-down::before {
+  content: "\f358"; }
+
+.fa-arrows-turn-to-dots::before {
+  content: "\e4c1"; }
+
+.fa-florin-sign::before {
+  content: "\e184"; }
+
+.fa-arrow-down-short-wide::before {
+  content: "\f884"; }
+
+.fa-sort-amount-desc::before {
+  content: "\f884"; }
+
+.fa-sort-amount-down-alt::before {
+  content: "\f884"; }
+
+.fa-less-than::before {
+  content: "\3c"; }
+
+.fa-angle-down::before {
+  content: "\f107"; }
+
+.fa-car-tunnel::before {
+  content: "\e4de"; }
+
+.fa-head-side-cough::before {
+  content: "\e061"; }
+
+.fa-grip-lines::before {
+  content: "\f7a4"; }
+
+.fa-thumbs-down::before {
+  content: "\f165"; }
+
+.fa-user-lock::before {
+  content: "\f502"; }
+
+.fa-arrow-right-long::before {
+  content: "\f178"; }
+
+.fa-long-arrow-right::before {
+  content: "\f178"; }
+
+.fa-anchor-circle-xmark::before {
+  content: "\e4ac"; }
+
+.fa-ellipsis::before {
+  content: "\f141"; }
+
+.fa-ellipsis-h::before {
+  content: "\f141"; }
+
+.fa-chess-pawn::before {
+  content: "\f443"; }
+
+.fa-kit-medical::before {
+  content: "\f479"; }
+
+.fa-first-aid::before {
+  content: "\f479"; }
+
+.fa-person-through-window::before {
+  content: "\e5a9"; }
+
+.fa-toolbox::before {
+  content: "\f552"; }
+
+.fa-hands-holding-circle::before {
+  content: "\e4fb"; }
+
+.fa-bug::before {
+  content: "\f188"; }
+
+.fa-credit-card::before {
+  content: "\f09d"; }
+
+.fa-credit-card-alt::before {
+  content: "\f09d"; }
+
+.fa-car::before {
+  content: "\f1b9"; }
+
+.fa-automobile::before {
+  content: "\f1b9"; }
+
+.fa-hand-holding-hand::before {
+  content: "\e4f7"; }
+
+.fa-book-open-reader::before {
+  content: "\f5da"; }
+
+.fa-book-reader::before {
+  content: "\f5da"; }
+
+.fa-mountain-sun::before {
+  content: "\e52f"; }
+
+.fa-arrows-left-right-to-line::before {
+  content: "\e4ba"; }
+
+.fa-dice-d20::before {
+  content: "\f6cf"; }
+
+.fa-truck-droplet::before {
+  content: "\e58c"; }
+
+.fa-file-circle-xmark::before {
+  content: "\e5a1"; }
+
+.fa-temperature-arrow-up::before {
+  content: "\e040"; }
+
+.fa-temperature-up::before {
+  content: "\e040"; }
+
+.fa-medal::before {
+  content: "\f5a2"; }
+
+.fa-bed::before {
+  content: "\f236"; }
+
+.fa-square-h::before {
+  content: "\f0fd"; }
+
+.fa-h-square::before {
+  content: "\f0fd"; }
+
+.fa-podcast::before {
+  content: "\f2ce"; }
+
+.fa-temperature-full::before {
+  content: "\f2c7"; }
+
+.fa-temperature-4::before {
+  content: "\f2c7"; }
+
+.fa-thermometer-4::before {
+  content: "\f2c7"; }
+
+.fa-thermometer-full::before {
+  content: "\f2c7"; }
+
+.fa-bell::before {
+  content: "\f0f3"; }
+
+.fa-superscript::before {
+  content: "\f12b"; }
+
+.fa-plug-circle-xmark::before {
+  content: "\e560"; }
+
+.fa-star-of-life::before {
+  content: "\f621"; }
+
+.fa-phone-slash::before {
+  content: "\f3dd"; }
+
+.fa-paint-roller::before {
+  content: "\f5aa"; }
+
+.fa-handshake-angle::before {
+  content: "\f4c4"; }
+
+.fa-hands-helping::before {
+  content: "\f4c4"; }
+
+.fa-location-dot::before {
+  content: "\f3c5"; }
+
+.fa-map-marker-alt::before {
+  content: "\f3c5"; }
+
+.fa-file::before {
+  content: "\f15b"; }
+
+.fa-greater-than::before {
+  content: "\3e"; }
+
+.fa-person-swimming::before {
+  content: "\f5c4"; }
+
+.fa-swimmer::before {
+  content: "\f5c4"; }
+
+.fa-arrow-down::before {
+  content: "\f063"; }
+
+.fa-droplet::before {
+  content: "\f043"; }
+
+.fa-tint::before {
+  content: "\f043"; }
+
+.fa-eraser::before {
+  content: "\f12d"; }
+
+.fa-earth-americas::before {
+  content: "\f57d"; }
+
+.fa-earth::before {
+  content: "\f57d"; }
+
+.fa-earth-america::before {
+  content: "\f57d"; }
+
+.fa-globe-americas::before {
+  content: "\f57d"; }
+
+.fa-person-burst::before {
+  content: "\e53b"; }
+
+.fa-dove::before {
+  content: "\f4ba"; }
+
+.fa-battery-empty::before {
+  content: "\f244"; }
+
+.fa-battery-0::before {
+  content: "\f244"; }
+
+.fa-socks::before {
+  content: "\f696"; }
+
+.fa-inbox::before {
+  content: "\f01c"; }
+
+.fa-section::before {
+  content: "\e447"; }
+
+.fa-gauge-high::before {
+  content: "\f625"; }
+
+.fa-tachometer-alt::before {
+  content: "\f625"; }
+
+.fa-tachometer-alt-fast::before {
+  content: "\f625"; }
+
+.fa-envelope-open-text::before {
+  content: "\f658"; }
+
+.fa-hospital::before {
+  content: "\f0f8"; }
+
+.fa-hospital-alt::before {
+  content: "\f0f8"; }
+
+.fa-hospital-wide::before {
+  content: "\f0f8"; }
+
+.fa-wine-bottle::before {
+  content: "\f72f"; }
+
+.fa-chess-rook::before {
+  content: "\f447"; }
+
+.fa-bars-staggered::before {
+  content: "\f550"; }
+
+.fa-reorder::before {
+  content: "\f550"; }
+
+.fa-stream::before {
+  content: "\f550"; }
+
+.fa-dharmachakra::before {
+  content: "\f655"; }
+
+.fa-hotdog::before {
+  content: "\f80f"; }
+
+.fa-person-walking-with-cane::before {
+  content: "\f29d"; }
+
+.fa-blind::before {
+  content: "\f29d"; }
+
+.fa-drum::before {
+  content: "\f569"; }
+
+.fa-ice-cream::before {
+  content: "\f810"; }
+
+.fa-heart-circle-bolt::before {
+  content: "\e4fc"; }
+
+.fa-fax::before {
+  content: "\f1ac"; }
+
+.fa-paragraph::before {
+  content: "\f1dd"; }
+
+.fa-check-to-slot::before {
+  content: "\f772"; }
+
+.fa-vote-yea::before {
+  content: "\f772"; }
+
+.fa-star-half::before {
+  content: "\f089"; }
+
+.fa-boxes-stacked::before {
+  content: "\f468"; }
+
+.fa-boxes::before {
+  content: "\f468"; }
+
+.fa-boxes-alt::before {
+  content: "\f468"; }
+
+.fa-link::before {
+  content: "\f0c1"; }
+
+.fa-chain::before {
+  content: "\f0c1"; }
+
+.fa-ear-listen::before {
+  content: "\f2a2"; }
+
+.fa-assistive-listening-systems::before {
+  content: "\f2a2"; }
+
+.fa-tree-city::before {
+  content: "\e587"; }
+
+.fa-play::before {
+  content: "\f04b"; }
+
+.fa-font::before {
+  content: "\f031"; }
+
+.fa-rupiah-sign::before {
+  content: "\e23d"; }
+
+.fa-magnifying-glass::before {
+  content: "\f002"; }
+
+.fa-search::before {
+  content: "\f002"; }
+
+.fa-table-tennis-paddle-ball::before {
+  content: "\f45d"; }
+
+.fa-ping-pong-paddle-ball::before {
+  content: "\f45d"; }
+
+.fa-table-tennis::before {
+  content: "\f45d"; }
+
+.fa-person-dots-from-line::before {
+  content: "\f470"; }
+
+.fa-diagnoses::before {
+  content: "\f470"; }
+
+.fa-trash-can-arrow-up::before {
+  content: "\f82a"; }
+
+.fa-trash-restore-alt::before {
+  content: "\f82a"; }
+
+.fa-naira-sign::before {
+  content: "\e1f6"; }
+
+.fa-cart-arrow-down::before {
+  content: "\f218"; }
+
+.fa-walkie-talkie::before {
+  content: "\f8ef"; }
+
+.fa-file-pen::before {
+  content: "\f31c"; }
+
+.fa-file-edit::before {
+  content: "\f31c"; }
+
+.fa-receipt::before {
+  content: "\f543"; }
+
+.fa-square-pen::before {
+  content: "\f14b"; }
+
+.fa-pen-square::before {
+  content: "\f14b"; }
+
+.fa-pencil-square::before {
+  content: "\f14b"; }
+
+.fa-suitcase-rolling::before {
+  content: "\f5c1"; }
+
+.fa-person-circle-exclamation::before {
+  content: "\e53f"; }
+
+.fa-chevron-down::before {
+  content: "\f078"; }
+
+.fa-battery-full::before {
+  content: "\f240"; }
+
+.fa-battery::before {
+  content: "\f240"; }
+
+.fa-battery-5::before {
+  content: "\f240"; }
+
+.fa-skull-crossbones::before {
+  content: "\f714"; }
+
+.fa-code-compare::before {
+  content: "\e13a"; }
+
+.fa-list-ul::before {
+  content: "\f0ca"; }
+
+.fa-list-dots::before {
+  content: "\f0ca"; }
+
+.fa-school-lock::before {
+  content: "\e56f"; }
+
+.fa-tower-cell::before {
+  content: "\e585"; }
+
+.fa-down-long::before {
+  content: "\f309"; }
+
+.fa-long-arrow-alt-down::before {
+  content: "\f309"; }
+
+.fa-ranking-star::before {
+  content: "\e561"; }
+
+.fa-chess-king::before {
+  content: "\f43f"; }
+
+.fa-person-harassing::before {
+  content: "\e549"; }
+
+.fa-brazilian-real-sign::before {
+  content: "\e46c"; }
+
+.fa-landmark-dome::before {
+  content: "\f752"; }
+
+.fa-landmark-alt::before {
+  content: "\f752"; }
+
+.fa-arrow-up::before {
+  content: "\f062"; }
+
+.fa-tv::before {
+  content: "\f26c"; }
+
+.fa-television::before {
+  content: "\f26c"; }
+
+.fa-tv-alt::before {
+  content: "\f26c"; }
+
+.fa-shrimp::before {
+  content: "\e448"; }
+
+.fa-list-check::before {
+  content: "\f0ae"; }
+
+.fa-tasks::before {
+  content: "\f0ae"; }
+
+.fa-jug-detergent::before {
+  content: "\e519"; }
+
+.fa-circle-user::before {
+  content: "\f2bd"; }
+
+.fa-user-circle::before {
+  content: "\f2bd"; }
+
+.fa-user-shield::before {
+  content: "\f505"; }
+
+.fa-wind::before {
+  content: "\f72e"; }
+
+.fa-car-burst::before {
+  content: "\f5e1"; }
+
+.fa-car-crash::before {
+  content: "\f5e1"; }
+
+.fa-y::before {
+  content: "\59"; }
+
+.fa-person-snowboarding::before {
+  content: "\f7ce"; }
+
+.fa-snowboarding::before {
+  content: "\f7ce"; }
+
+.fa-truck-fast::before {
+  content: "\f48b"; }
+
+.fa-shipping-fast::before {
+  content: "\f48b"; }
+
+.fa-fish::before {
+  content: "\f578"; }
+
+.fa-user-graduate::before {
+  content: "\f501"; }
+
+.fa-circle-half-stroke::before {
+  content: "\f042"; }
+
+.fa-adjust::before {
+  content: "\f042"; }
+
+.fa-clapperboard::before {
+  content: "\e131"; }
+
+.fa-circle-radiation::before {
+  content: "\f7ba"; }
+
+.fa-radiation-alt::before {
+  content: "\f7ba"; }
+
+.fa-baseball::before {
+  content: "\f433"; }
+
+.fa-baseball-ball::before {
+  content: "\f433"; }
+
+.fa-jet-fighter-up::before {
+  content: "\e518"; }
+
+.fa-diagram-project::before {
+  content: "\f542"; }
+
+.fa-project-diagram::before {
+  content: "\f542"; }
+
+.fa-copy::before {
+  content: "\f0c5"; }
+
+.fa-volume-xmark::before {
+  content: "\f6a9"; }
+
+.fa-volume-mute::before {
+  content: "\f6a9"; }
+
+.fa-volume-times::before {
+  content: "\f6a9"; }
+
+.fa-hand-sparkles::before {
+  content: "\e05d"; }
+
+.fa-grip::before {
+  content: "\f58d"; }
+
+.fa-grip-horizontal::before {
+  content: "\f58d"; }
+
+.fa-share-from-square::before {
+  content: "\f14d"; }
+
+.fa-share-square::before {
+  content: "\f14d"; }
+
+.fa-child-combatant::before {
+  content: "\e4e0"; }
+
+.fa-child-rifle::before {
+  content: "\e4e0"; }
+
+.fa-gun::before {
+  content: "\e19b"; }
+
+.fa-square-phone::before {
+  content: "\f098"; }
+
+.fa-phone-square::before {
+  content: "\f098"; }
+
+.fa-plus::before {
+  content: "\2b"; }
+
+.fa-add::before {
+  content: "\2b"; }
+
+.fa-expand::before {
+  content: "\f065"; }
+
+.fa-computer::before {
+  content: "\e4e5"; }
+
+.fa-xmark::before {
+  content: "\f00d"; }
+
+.fa-close::before {
+  content: "\f00d"; }
+
+.fa-multiply::before {
+  content: "\f00d"; }
+
+.fa-remove::before {
+  content: "\f00d"; }
+
+.fa-times::before {
+  content: "\f00d"; }
+
+.fa-arrows-up-down-left-right::before {
+  content: "\f047"; }
+
+.fa-arrows::before {
+  content: "\f047"; }
+
+.fa-chalkboard-user::before {
+  content: "\f51c"; }
+
+.fa-chalkboard-teacher::before {
+  content: "\f51c"; }
+
+.fa-peso-sign::before {
+  content: "\e222"; }
+
+.fa-building-shield::before {
+  content: "\e4d8"; }
+
+.fa-baby::before {
+  content: "\f77c"; }
+
+.fa-users-line::before {
+  content: "\e592"; }
+
+.fa-quote-left::before {
+  content: "\f10d"; }
+
+.fa-quote-left-alt::before {
+  content: "\f10d"; }
+
+.fa-tractor::before {
+  content: "\f722"; }
+
+.fa-trash-arrow-up::before {
+  content: "\f829"; }
+
+.fa-trash-restore::before {
+  content: "\f829"; }
+
+.fa-arrow-down-up-lock::before {
+  content: "\e4b0"; }
+
+.fa-lines-leaning::before {
+  content: "\e51e"; }
+
+.fa-ruler-combined::before {
+  content: "\f546"; }
+
+.fa-copyright::before {
+  content: "\f1f9"; }
+
+.fa-equals::before {
+  content: "\3d"; }
+
+.fa-blender::before {
+  content: "\f517"; }
+
+.fa-teeth::before {
+  content: "\f62e"; }
+
+.fa-shekel-sign::before {
+  content: "\f20b"; }
+
+.fa-ils::before {
+  content: "\f20b"; }
+
+.fa-shekel::before {
+  content: "\f20b"; }
+
+.fa-sheqel::before {
+  content: "\f20b"; }
+
+.fa-sheqel-sign::before {
+  content: "\f20b"; }
+
+.fa-map::before {
+  content: "\f279"; }
+
+.fa-rocket::before {
+  content: "\f135"; }
+
+.fa-photo-film::before {
+  content: "\f87c"; }
+
+.fa-photo-video::before {
+  content: "\f87c"; }
+
+.fa-folder-minus::before {
+  content: "\f65d"; }
+
+.fa-store::before {
+  content: "\f54e"; }
+
+.fa-arrow-trend-up::before {
+  content: "\e098"; }
+
+.fa-plug-circle-minus::before {
+  content: "\e55e"; }
+
+.fa-sign-hanging::before {
+  content: "\f4d9"; }
+
+.fa-sign::before {
+  content: "\f4d9"; }
+
+.fa-bezier-curve::before {
+  content: "\f55b"; }
+
+.fa-bell-slash::before {
+  content: "\f1f6"; }
+
+.fa-tablet::before {
+  content: "\f3fb"; }
+
+.fa-tablet-android::before {
+  content: "\f3fb"; }
+
+.fa-school-flag::before {
+  content: "\e56e"; }
+
+.fa-fill::before {
+  content: "\f575"; }
+
+.fa-angle-up::before {
+  content: "\f106"; }
+
+.fa-drumstick-bite::before {
+  content: "\f6d7"; }
+
+.fa-holly-berry::before {
+  content: "\f7aa"; }
+
+.fa-chevron-left::before {
+  content: "\f053"; }
+
+.fa-bacteria::before {
+  content: "\e059"; }
+
+.fa-hand-lizard::before {
+  content: "\f258"; }
+
+.fa-notdef::before {
+  content: "\e1fe"; }
+
+.fa-disease::before {
+  content: "\f7fa"; }
+
+.fa-briefcase-medical::before {
+  content: "\f469"; }
+
+.fa-genderless::before {
+  content: "\f22d"; }
+
+.fa-chevron-right::before {
+  content: "\f054"; }
+
+.fa-retweet::before {
+  content: "\f079"; }
+
+.fa-car-rear::before {
+  content: "\f5de"; }
+
+.fa-car-alt::before {
+  content: "\f5de"; }
+
+.fa-pump-soap::before {
+  content: "\e06b"; }
+
+.fa-video-slash::before {
+  content: "\f4e2"; }
+
+.fa-battery-quarter::before {
+  content: "\f243"; }
+
+.fa-battery-2::before {
+  content: "\f243"; }
+
+.fa-radio::before {
+  content: "\f8d7"; }
+
+.fa-baby-carriage::before {
+  content: "\f77d"; }
+
+.fa-carriage-baby::before {
+  content: "\f77d"; }
+
+.fa-traffic-light::before {
+  content: "\f637"; }
+
+.fa-thermometer::before {
+  content: "\f491"; }
+
+.fa-vr-cardboard::before {
+  content: "\f729"; }
+
+.fa-hand-middle-finger::before {
+  content: "\f806"; }
+
+.fa-percent::before {
+  content: "\25"; }
+
+.fa-percentage::before {
+  content: "\25"; }
+
+.fa-truck-moving::before {
+  content: "\f4df"; }
+
+.fa-glass-water-droplet::before {
+  content: "\e4f5"; }
+
+.fa-display::before {
+  content: "\e163"; }
+
+.fa-face-smile::before {
+  content: "\f118"; }
+
+.fa-smile::before {
+  content: "\f118"; }
+
+.fa-thumbtack::before {
+  content: "\f08d"; }
+
+.fa-thumb-tack::before {
+  content: "\f08d"; }
+
+.fa-trophy::before {
+  content: "\f091"; }
+
+.fa-person-praying::before {
+  content: "\f683"; }
+
+.fa-pray::before {
+  content: "\f683"; }
+
+.fa-hammer::before {
+  content: "\f6e3"; }
+
+.fa-hand-peace::before {
+  content: "\f25b"; }
+
+.fa-rotate::before {
+  content: "\f2f1"; }
+
+.fa-sync-alt::before {
+  content: "\f2f1"; }
+
+.fa-spinner::before {
+  content: "\f110"; }
+
+.fa-robot::before {
+  content: "\f544"; }
+
+.fa-peace::before {
+  content: "\f67c"; }
+
+.fa-gears::before {
+  content: "\f085"; }
+
+.fa-cogs::before {
+  content: "\f085"; }
+
+.fa-warehouse::before {
+  content: "\f494"; }
+
+.fa-arrow-up-right-dots::before {
+  content: "\e4b7"; }
+
+.fa-splotch::before {
+  content: "\f5bc"; }
+
+.fa-face-grin-hearts::before {
+  content: "\f584"; }
+
+.fa-grin-hearts::before {
+  content: "\f584"; }
+
+.fa-dice-four::before {
+  content: "\f524"; }
+
+.fa-sim-card::before {
+  content: "\f7c4"; }
+
+.fa-transgender::before {
+  content: "\f225"; }
+
+.fa-transgender-alt::before {
+  content: "\f225"; }
+
+.fa-mercury::before {
+  content: "\f223"; }
+
+.fa-arrow-turn-down::before {
+  content: "\f149"; }
+
+.fa-level-down::before {
+  content: "\f149"; }
+
+.fa-person-falling-burst::before {
+  content: "\e547"; }
+
+.fa-award::before {
+  content: "\f559"; }
+
+.fa-ticket-simple::before {
+  content: "\f3ff"; }
+
+.fa-ticket-alt::before {
+  content: "\f3ff"; }
+
+.fa-building::before {
+  content: "\f1ad"; }
+
+.fa-angles-left::before {
+  content: "\f100"; }
+
+.fa-angle-double-left::before {
+  content: "\f100"; }
+
+.fa-qrcode::before {
+  content: "\f029"; }
+
+.fa-clock-rotate-left::before {
+  content: "\f1da"; }
+
+.fa-history::before {
+  content: "\f1da"; }
+
+.fa-face-grin-beam-sweat::before {
+  content: "\f583"; }
+
+.fa-grin-beam-sweat::before {
+  content: "\f583"; }
+
+.fa-file-export::before {
+  content: "\f56e"; }
+
+.fa-arrow-right-from-file::before {
+  content: "\f56e"; }
+
+.fa-shield::before {
+  content: "\f132"; }
+
+.fa-shield-blank::before {
+  content: "\f132"; }
+
+.fa-arrow-up-short-wide::before {
+  content: "\f885"; }
+
+.fa-sort-amount-up-alt::before {
+  content: "\f885"; }
+
+.fa-house-medical::before {
+  content: "\e3b2"; }
+
+.fa-golf-ball-tee::before {
+  content: "\f450"; }
+
+.fa-golf-ball::before {
+  content: "\f450"; }
+
+.fa-circle-chevron-left::before {
+  content: "\f137"; }
+
+.fa-chevron-circle-left::before {
+  content: "\f137"; }
+
+.fa-house-chimney-window::before {
+  content: "\e00d"; }
+
+.fa-pen-nib::before {
+  content: "\f5ad"; }
+
+.fa-tent-arrow-turn-left::before {
+  content: "\e580"; }
+
+.fa-tents::before {
+  content: "\e582"; }
+
+.fa-wand-magic::before {
+  content: "\f0d0"; }
+
+.fa-magic::before {
+  content: "\f0d0"; }
+
+.fa-dog::before {
+  content: "\f6d3"; }
+
+.fa-carrot::before {
+  content: "\f787"; }
+
+.fa-moon::before {
+  content: "\f186"; }
+
+.fa-wine-glass-empty::before {
+  content: "\f5ce"; }
+
+.fa-wine-glass-alt::before {
+  content: "\f5ce"; }
+
+.fa-cheese::before {
+  content: "\f7ef"; }
+
+.fa-yin-yang::before {
+  content: "\f6ad"; }
+
+.fa-music::before {
+  content: "\f001"; }
+
+.fa-code-commit::before {
+  content: "\f386"; }
+
+.fa-temperature-low::before {
+  content: "\f76b"; }
+
+.fa-person-biking::before {
+  content: "\f84a"; }
+
+.fa-biking::before {
+  content: "\f84a"; }
+
+.fa-broom::before {
+  content: "\f51a"; }
+
+.fa-shield-heart::before {
+  content: "\e574"; }
+
+.fa-gopuram::before {
+  content: "\f664"; }
+
+.fa-earth-oceania::before {
+  content: "\e47b"; }
+
+.fa-globe-oceania::before {
+  content: "\e47b"; }
+
+.fa-square-xmark::before {
+  content: "\f2d3"; }
+
+.fa-times-square::before {
+  content: "\f2d3"; }
+
+.fa-xmark-square::before {
+  content: "\f2d3"; }
+
+.fa-hashtag::before {
+  content: "\23"; }
+
+.fa-up-right-and-down-left-from-center::before {
+  content: "\f424"; }
+
+.fa-expand-alt::before {
+  content: "\f424"; }
+
+.fa-oil-can::before {
+  content: "\f613"; }
+
+.fa-t::before {
+  content: "\54"; }
+
+.fa-hippo::before {
+  content: "\f6ed"; }
+
+.fa-chart-column::before {
+  content: "\e0e3"; }
+
+.fa-infinity::before {
+  content: "\f534"; }
+
+.fa-vial-circle-check::before {
+  content: "\e596"; }
+
+.fa-person-arrow-down-to-line::before {
+  content: "\e538"; }
+
+.fa-voicemail::before {
+  content: "\f897"; }
+
+.fa-fan::before {
+  content: "\f863"; }
+
+.fa-person-walking-luggage::before {
+  content: "\e554"; }
+
+.fa-up-down::before {
+  content: "\f338"; }
+
+.fa-arrows-alt-v::before {
+  content: "\f338"; }
+
+.fa-cloud-moon-rain::before {
+  content: "\f73c"; }
+
+.fa-calendar::before {
+  content: "\f133"; }
+
+.fa-trailer::before {
+  content: "\e041"; }
+
+.fa-bahai::before {
+  content: "\f666"; }
+
+.fa-haykal::before {
+  content: "\f666"; }
+
+.fa-sd-card::before {
+  content: "\f7c2"; }
+
+.fa-dragon::before {
+  content: "\f6d5"; }
+
+.fa-shoe-prints::before {
+  content: "\f54b"; }
+
+.fa-circle-plus::before {
+  content: "\f055"; }
+
+.fa-plus-circle::before {
+  content: "\f055"; }
+
+.fa-face-grin-tongue-wink::before {
+  content: "\f58b"; }
+
+.fa-grin-tongue-wink::before {
+  content: "\f58b"; }
+
+.fa-hand-holding::before {
+  content: "\f4bd"; }
+
+.fa-plug-circle-exclamation::before {
+  content: "\e55d"; }
+
+.fa-link-slash::before {
+  content: "\f127"; }
+
+.fa-chain-broken::before {
+  content: "\f127"; }
+
+.fa-chain-slash::before {
+  content: "\f127"; }
+
+.fa-unlink::before {
+  content: "\f127"; }
+
+.fa-clone::before {
+  content: "\f24d"; }
+
+.fa-person-walking-arrow-loop-left::before {
+  content: "\e551"; }
+
+.fa-arrow-up-z-a::before {
+  content: "\f882"; }
+
+.fa-sort-alpha-up-alt::before {
+  content: "\f882"; }
+
+.fa-fire-flame-curved::before {
+  content: "\f7e4"; }
+
+.fa-fire-alt::before {
+  content: "\f7e4"; }
+
+.fa-tornado::before {
+  content: "\f76f"; }
+
+.fa-file-circle-plus::before {
+  content: "\e494"; }
+
+.fa-book-quran::before {
+  content: "\f687"; }
+
+.fa-quran::before {
+  content: "\f687"; }
+
+.fa-anchor::before {
+  content: "\f13d"; }
+
+.fa-border-all::before {
+  content: "\f84c"; }
+
+.fa-face-angry::before {
+  content: "\f556"; }
+
+.fa-angry::before {
+  content: "\f556"; }
+
+.fa-cookie-bite::before {
+  content: "\f564"; }
+
+.fa-arrow-trend-down::before {
+  content: "\e097"; }
+
+.fa-rss::before {
+  content: "\f09e"; }
+
+.fa-feed::before {
+  content: "\f09e"; }
+
+.fa-draw-polygon::before {
+  content: "\f5ee"; }
+
+.fa-scale-balanced::before {
+  content: "\f24e"; }
+
+.fa-balance-scale::before {
+  content: "\f24e"; }
+
+.fa-gauge-simple-high::before {
+  content: "\f62a"; }
+
+.fa-tachometer::before {
+  content: "\f62a"; }
+
+.fa-tachometer-fast::before {
+  content: "\f62a"; }
+
+.fa-shower::before {
+  content: "\f2cc"; }
+
+.fa-desktop::before {
+  content: "\f390"; }
+
+.fa-desktop-alt::before {
+  content: "\f390"; }
+
+.fa-m::before {
+  content: "\4d"; }
+
+.fa-table-list::before {
+  content: "\f00b"; }
+
+.fa-th-list::before {
+  content: "\f00b"; }
+
+.fa-comment-sms::before {
+  content: "\f7cd"; }
+
+.fa-sms::before {
+  content: "\f7cd"; }
+
+.fa-book::before {
+  content: "\f02d"; }
+
+.fa-user-plus::before {
+  content: "\f234"; }
+
+.fa-check::before {
+  content: "\f00c"; }
+
+.fa-battery-three-quarters::before {
+  content: "\f241"; }
+
+.fa-battery-4::before {
+  content: "\f241"; }
+
+.fa-house-circle-check::before {
+  content: "\e509"; }
+
+.fa-angle-left::before {
+  content: "\f104"; }
+
+.fa-diagram-successor::before {
+  content: "\e47a"; }
+
+.fa-truck-arrow-right::before {
+  content: "\e58b"; }
+
+.fa-arrows-split-up-and-left::before {
+  content: "\e4bc"; }
+
+.fa-hand-fist::before {
+  content: "\f6de"; }
+
+.fa-fist-raised::before {
+  content: "\f6de"; }
+
+.fa-cloud-moon::before {
+  content: "\f6c3"; }
+
+.fa-briefcase::before {
+  content: "\f0b1"; }
+
+.fa-person-falling::before {
+  content: "\e546"; }
+
+.fa-image-portrait::before {
+  content: "\f3e0"; }
+
+.fa-portrait::before {
+  content: "\f3e0"; }
+
+.fa-user-tag::before {
+  content: "\f507"; }
+
+.fa-rug::before {
+  content: "\e569"; }
+
+.fa-earth-europe::before {
+  content: "\f7a2"; }
+
+.fa-globe-europe::before {
+  content: "\f7a2"; }
+
+.fa-cart-flatbed-suitcase::before {
+  content: "\f59d"; }
+
+.fa-luggage-cart::before {
+  content: "\f59d"; }
+
+.fa-rectangle-xmark::before {
+  content: "\f410"; }
+
+.fa-rectangle-times::before {
+  content: "\f410"; }
+
+.fa-times-rectangle::before {
+  content: "\f410"; }
+
+.fa-window-close::before {
+  content: "\f410"; }
+
+.fa-baht-sign::before {
+  content: "\e0ac"; }
+
+.fa-book-open::before {
+  content: "\f518"; }
+
+.fa-book-journal-whills::before {
+  content: "\f66a"; }
+
+.fa-journal-whills::before {
+  content: "\f66a"; }
+
+.fa-handcuffs::before {
+  content: "\e4f8"; }
+
+.fa-triangle-exclamation::before {
+  content: "\f071"; }
+
+.fa-exclamation-triangle::before {
+  content: "\f071"; }
+
+.fa-warning::before {
+  content: "\f071"; }
+
+.fa-database::before {
+  content: "\f1c0"; }
+
+.fa-share::before {
+  content: "\f064"; }
+
+.fa-arrow-turn-right::before {
+  content: "\f064"; }
+
+.fa-mail-forward::before {
+  content: "\f064"; }
+
+.fa-bottle-droplet::before {
+  content: "\e4c4"; }
+
+.fa-mask-face::before {
+  content: "\e1d7"; }
+
+.fa-hill-rockslide::before {
+  content: "\e508"; }
+
+.fa-right-left::before {
+  content: "\f362"; }
+
+.fa-exchange-alt::before {
+  content: "\f362"; }
+
+.fa-paper-plane::before {
+  content: "\f1d8"; }
+
+.fa-road-circle-exclamation::before {
+  content: "\e565"; }
+
+.fa-dungeon::before {
+  content: "\f6d9"; }
+
+.fa-align-right::before {
+  content: "\f038"; }
+
+.fa-money-bill-1-wave::before {
+  content: "\f53b"; }
+
+.fa-money-bill-wave-alt::before {
+  content: "\f53b"; }
+
+.fa-life-ring::before {
+  content: "\f1cd"; }
+
+.fa-hands::before {
+  content: "\f2a7"; }
+
+.fa-sign-language::before {
+  content: "\f2a7"; }
+
+.fa-signing::before {
+  content: "\f2a7"; }
+
+.fa-calendar-day::before {
+  content: "\f783"; }
+
+.fa-water-ladder::before {
+  content: "\f5c5"; }
+
+.fa-ladder-water::before {
+  content: "\f5c5"; }
+
+.fa-swimming-pool::before {
+  content: "\f5c5"; }
+
+.fa-arrows-up-down::before {
+  content: "\f07d"; }
+
+.fa-arrows-v::before {
+  content: "\f07d"; }
+
+.fa-face-grimace::before {
+  content: "\f57f"; }
+
+.fa-grimace::before {
+  content: "\f57f"; }
+
+.fa-wheelchair-move::before {
+  content: "\e2ce"; }
+
+.fa-wheelchair-alt::before {
+  content: "\e2ce"; }
+
+.fa-turn-down::before {
+  content: "\f3be"; }
+
+.fa-level-down-alt::before {
+  content: "\f3be"; }
+
+.fa-person-walking-arrow-right::before {
+  content: "\e552"; }
+
+.fa-square-envelope::before {
+  content: "\f199"; }
+
+.fa-envelope-square::before {
+  content: "\f199"; }
+
+.fa-dice::before {
+  content: "\f522"; }
+
+.fa-bowling-ball::before {
+  content: "\f436"; }
+
+.fa-brain::before {
+  content: "\f5dc"; }
+
+.fa-bandage::before {
+  content: "\f462"; }
+
+.fa-band-aid::before {
+  content: "\f462"; }
+
+.fa-calendar-minus::before {
+  content: "\f272"; }
+
+.fa-circle-xmark::before {
+  content: "\f057"; }
+
+.fa-times-circle::before {
+  content: "\f057"; }
+
+.fa-xmark-circle::before {
+  content: "\f057"; }
+
+.fa-gifts::before {
+  content: "\f79c"; }
+
+.fa-hotel::before {
+  content: "\f594"; }
+
+.fa-earth-asia::before {
+  content: "\f57e"; }
+
+.fa-globe-asia::before {
+  content: "\f57e"; }
+
+.fa-id-card-clip::before {
+  content: "\f47f"; }
+
+.fa-id-card-alt::before {
+  content: "\f47f"; }
+
+.fa-magnifying-glass-plus::before {
+  content: "\f00e"; }
+
+.fa-search-plus::before {
+  content: "\f00e"; }
+
+.fa-thumbs-up::before {
+  content: "\f164"; }
+
+.fa-user-clock::before {
+  content: "\f4fd"; }
+
+.fa-hand-dots::before {
+  content: "\f461"; }
+
+.fa-allergies::before {
+  content: "\f461"; }
+
+.fa-file-invoice::before {
+  content: "\f570"; }
+
+.fa-window-minimize::before {
+  content: "\f2d1"; }
+
+.fa-mug-saucer::before {
+  content: "\f0f4"; }
+
+.fa-coffee::before {
+  content: "\f0f4"; }
+
+.fa-brush::before {
+  content: "\f55d"; }
+
+.fa-mask::before {
+  content: "\f6fa"; }
+
+.fa-magnifying-glass-minus::before {
+  content: "\f010"; }
+
+.fa-search-minus::before {
+  content: "\f010"; }
+
+.fa-ruler-vertical::before {
+  content: "\f548"; }
+
+.fa-user-large::before {
+  content: "\f406"; }
+
+.fa-user-alt::before {
+  content: "\f406"; }
+
+.fa-train-tram::before {
+  content: "\e5b4"; }
+
+.fa-user-nurse::before {
+  content: "\f82f"; }
+
+.fa-syringe::before {
+  content: "\f48e"; }
+
+.fa-cloud-sun::before {
+  content: "\f6c4"; }
+
+.fa-stopwatch-20::before {
+  content: "\e06f"; }
+
+.fa-square-full::before {
+  content: "\f45c"; }
+
+.fa-magnet::before {
+  content: "\f076"; }
+
+.fa-jar::before {
+  content: "\e516"; }
+
+.fa-note-sticky::before {
+  content: "\f249"; }
+
+.fa-sticky-note::before {
+  content: "\f249"; }
+
+.fa-bug-slash::before {
+  content: "\e490"; }
+
+.fa-arrow-up-from-water-pump::before {
+  content: "\e4b6"; }
+
+.fa-bone::before {
+  content: "\f5d7"; }
+
+.fa-user-injured::before {
+  content: "\f728"; }
+
+.fa-face-sad-tear::before {
+  content: "\f5b4"; }
+
+.fa-sad-tear::before {
+  content: "\f5b4"; }
+
+.fa-plane::before {
+  content: "\f072"; }
+
+.fa-tent-arrows-down::before {
+  content: "\e581"; }
+
+.fa-exclamation::before {
+  content: "\21"; }
+
+.fa-arrows-spin::before {
+  content: "\e4bb"; }
+
+.fa-print::before {
+  content: "\f02f"; }
+
+.fa-turkish-lira-sign::before {
+  content: "\e2bb"; }
+
+.fa-try::before {
+  content: "\e2bb"; }
+
+.fa-turkish-lira::before {
+  content: "\e2bb"; }
+
+.fa-dollar-sign::before {
+  content: "\24"; }
+
+.fa-dollar::before {
+  content: "\24"; }
+
+.fa-usd::before {
+  content: "\24"; }
+
+.fa-x::before {
+  content: "\58"; }
+
+.fa-magnifying-glass-dollar::before {
+  content: "\f688"; }
+
+.fa-search-dollar::before {
+  content: "\f688"; }
+
+.fa-users-gear::before {
+  content: "\f509"; }
+
+.fa-users-cog::before {
+  content: "\f509"; }
+
+.fa-person-military-pointing::before {
+  content: "\e54a"; }
+
+.fa-building-columns::before {
+  content: "\f19c"; }
+
+.fa-bank::before {
+  content: "\f19c"; }
+
+.fa-institution::before {
+  content: "\f19c"; }
+
+.fa-museum::before {
+  content: "\f19c"; }
+
+.fa-university::before {
+  content: "\f19c"; }
+
+.fa-umbrella::before {
+  content: "\f0e9"; }
+
+.fa-trowel::before {
+  content: "\e589"; }
+
+.fa-d::before {
+  content: "\44"; }
+
+.fa-stapler::before {
+  content: "\e5af"; }
+
+.fa-masks-theater::before {
+  content: "\f630"; }
+
+.fa-theater-masks::before {
+  content: "\f630"; }
+
+.fa-kip-sign::before {
+  content: "\e1c4"; }
+
+.fa-hand-point-left::before {
+  content: "\f0a5"; }
+
+.fa-handshake-simple::before {
+  content: "\f4c6"; }
+
+.fa-handshake-alt::before {
+  content: "\f4c6"; }
+
+.fa-jet-fighter::before {
+  content: "\f0fb"; }
+
+.fa-fighter-jet::before {
+  content: "\f0fb"; }
+
+.fa-square-share-nodes::before {
+  content: "\f1e1"; }
+
+.fa-share-alt-square::before {
+  content: "\f1e1"; }
+
+.fa-barcode::before {
+  content: "\f02a"; }
+
+.fa-plus-minus::before {
+  content: "\e43c"; }
+
+.fa-video::before {
+  content: "\f03d"; }
+
+.fa-video-camera::before {
+  content: "\f03d"; }
+
+.fa-graduation-cap::before {
+  content: "\f19d"; }
+
+.fa-mortar-board::before {
+  content: "\f19d"; }
+
+.fa-hand-holding-medical::before {
+  content: "\e05c"; }
+
+.fa-person-circle-check::before {
+  content: "\e53e"; }
+
+.fa-turn-up::before {
+  content: "\f3bf"; }
+
+.fa-level-up-alt::before {
+  content: "\f3bf"; }
+
+.sr-only,
+.fa-sr-only {
+  position: absolute;
+  width: 1px;
+  height: 1px;
+  padding: 0;
+  margin: -1px;
+  overflow: hidden;
+  clip: rect(0, 0, 0, 0);
+  white-space: nowrap;
+  border-width: 0; }
+
+.sr-only-focusable:not(:focus),
+.fa-sr-only-focusable:not(:focus) {
+  position: absolute;
+  width: 1px;
+  height: 1px;
+  padding: 0;
+  margin: -1px;
+  overflow: hidden;
+  clip: rect(0, 0, 0, 0);
+  white-space: nowrap;
+  border-width: 0; }
+:root, :host {
+  --fa-style-family-brands: 'Font Awesome 6 Brands';
+  --fa-font-brands: normal 400 1em/1 'Font Awesome 6 Brands'; }
+
+@font-face {
+  font-family: 'Font Awesome 6 Brands';
+  font-style: normal;
+  font-weight: 400;
+  font-display: block;
+  src: url("../webfonts/fa-brands-400.woff2") format("woff2"), url("../webfonts/fa-brands-400.ttf") format("truetype"); }
+
+.fab,
+.fa-brands {
+  font-weight: 400; }
+
+.fa-monero:before {
+  content: "\f3d0"; }
+
+.fa-hooli:before {
+  content: "\f427"; }
+
+.fa-yelp:before {
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+.fa-pied-piper-square:before {
+  content: "\e01e"; }
+
+.fa-creative-commons-nd:before {
+  content: "\f4eb"; }
+
+.fa-palfed:before {
+  content: "\f3d8"; }
+
+.fa-superpowers:before {
+  content: "\f2dd"; }
+
+.fa-resolving:before {
+  content: "\f3e7"; }
+
+.fa-xbox:before {
+  content: "\f412"; }
+
+.fa-searchengin:before {
+  content: "\f3eb"; }
+
+.fa-tiktok:before {
+  content: "\e07b"; }
+
+.fa-square-facebook:before {
+  content: "\f082"; }
+
+.fa-facebook-square:before {
+  content: "\f082"; }
+
+.fa-renren:before {
+  content: "\f18b"; }
+
+.fa-linux:before {
+  content: "\f17c"; }
+
+.fa-glide:before {
+  content: "\f2a5"; }
+
+.fa-linkedin:before {
+  content: "\f08c"; }
+
+.fa-hubspot:before {
+  content: "\f3b2"; }
+
+.fa-deploydog:before {
+  content: "\f38e"; }
+
+.fa-twitch:before {
+  content: "\f1e8"; }
+
+.fa-ravelry:before {
+  content: "\f2d9"; }
+
+.fa-mixer:before {
+  content: "\e056"; }
+
+.fa-square-lastfm:before {
+  content: "\f203"; }
+
+.fa-lastfm-square:before {
+  content: "\f203"; }
+
+.fa-vimeo:before {
+  content: "\f40a"; }
+
+.fa-mendeley:before {
+  content: "\f7b3"; }
+
+.fa-uniregistry:before {
+  content: "\f404"; }
+
+.fa-figma:before {
+  content: "\f799"; }
+
+.fa-creative-commons-remix:before {
+  content: "\f4ee"; }
+
+.fa-cc-amazon-pay:before {
+  content: "\f42d"; }
+
+.fa-dropbox:before {
+  content: "\f16b"; }
+
+.fa-instagram:before {
+  content: "\f16d"; }
+
+.fa-cmplid:before {
+  content: "\e360"; }
+
+.fa-facebook:before {
+  content: "\f09a"; }
+
+.fa-gripfire:before {
+  content: "\f3ac"; }
+
+.fa-jedi-order:before {
+  content: "\f50e"; }
+
+.fa-uikit:before {
+  content: "\f403"; }
+
+.fa-fort-awesome-alt:before {
+  content: "\f3a3"; }
+
+.fa-phabricator:before {
+  content: "\f3db"; }
+
+.fa-ussunnah:before {
+  content: "\f407"; }
+
+.fa-earlybirds:before {
+  content: "\f39a"; }
+
+.fa-trade-federation:before {
+  content: "\f513"; }
+
+.fa-autoprefixer:before {
+  content: "\f41c"; }
+
+.fa-whatsapp:before {
+  content: "\f232"; }
+
+.fa-slideshare:before {
+  content: "\f1e7"; }
+
+.fa-google-play:before {
+  content: "\f3ab"; }
+
+.fa-viadeo:before {
+  content: "\f2a9"; }
+
+.fa-line:before {
+  content: "\f3c0"; }
+
+.fa-google-drive:before {
+  content: "\f3aa"; }
+
+.fa-servicestack:before {
+  content: "\f3ec"; }
+
+.fa-simplybuilt:before {
+  content: "\f215"; }
+
+.fa-bitbucket:before {
+  content: "\f171"; }
+
+.fa-imdb:before {
+  content: "\f2d8"; }
+
+.fa-deezer:before {
+  content: "\e077"; }
+
+.fa-raspberry-pi:before {
+  content: "\f7bb"; }
+
+.fa-jira:before {
+  content: "\f7b1"; }
+
+.fa-docker:before {
+  content: "\f395"; }
+
+.fa-screenpal:before {
+  content: "\e570"; }
+
+.fa-bluetooth:before {
+  content: "\f293"; }
+
+.fa-gitter:before {
+  content: "\f426"; }
+
+.fa-d-and-d:before {
+  content: "\f38d"; }
+
+.fa-microblog:before {
+  content: "\e01a"; }
+
+.fa-cc-diners-club:before {
+  content: "\f24c"; }
+
+.fa-gg-circle:before {
+  content: "\f261"; }
+
+.fa-pied-piper-hat:before {
+  content: "\f4e5"; }
+
+.fa-kickstarter-k:before {
+  content: "\f3bc"; }
+
+.fa-yandex:before {
+  content: "\f413"; }
+
+.fa-readme:before {
+  content: "\f4d5"; }
+
+.fa-html5:before {
+  content: "\f13b"; }
+
+.fa-sellsy:before {
+  content: "\f213"; }
+
+.fa-sass:before {
+  content: "\f41e"; }
+
+.fa-wirsindhandwerk:before {
+  content: "\e2d0"; }
+
+.fa-wsh:before {
+  content: "\e2d0"; }
+
+.fa-buromobelexperte:before {
+  content: "\f37f"; }
+
+.fa-salesforce:before {
+  content: "\f83b"; }
+
+.fa-octopus-deploy:before {
+  content: "\e082"; }
+
+.fa-medapps:before {
+  content: "\f3c6"; }
+
+.fa-ns8:before {
+  content: "\f3d5"; }
+
+.fa-pinterest-p:before {
+  content: "\f231"; }
+
+.fa-apper:before {
+  content: "\f371"; }
+
+.fa-fort-awesome:before {
+  content: "\f286"; }
+
+.fa-waze:before {
+  content: "\f83f"; }
+
+.fa-cc-jcb:before {
+  content: "\f24b"; }
+
+.fa-snapchat:before {
+  content: "\f2ab"; }
+
+.fa-snapchat-ghost:before {
+  content: "\f2ab"; }
+
+.fa-fantasy-flight-games:before {
+  content: "\f6dc"; }
+
+.fa-rust:before {
+  content: "\e07a"; }
+
+.fa-wix:before {
+  content: "\f5cf"; }
+
+.fa-square-behance:before {
+  content: "\f1b5"; }
+
+.fa-behance-square:before {
+  content: "\f1b5"; }
+
+.fa-supple:before {
+  content: "\f3f9"; }
+
+.fa-rebel:before {
+  content: "\f1d0"; }
+
+.fa-css3:before {
+  content: "\f13c"; }
+
+.fa-staylinked:before {
+  content: "\f3f5"; }
+
+.fa-kaggle:before {
+  content: "\f5fa"; }
+
+.fa-space-awesome:before {
+  content: "\e5ac"; }
+
+.fa-deviantart:before {
+  content: "\f1bd"; }
+
+.fa-cpanel:before {
+  content: "\f388"; }
+
+.fa-goodreads-g:before {
+  content: "\f3a9"; }
+
+.fa-square-git:before {
+  content: "\f1d2"; }
+
+.fa-git-square:before {
+  content: "\f1d2"; }
+
+.fa-square-tumblr:before {
+  content: "\f174"; }
+
+.fa-tumblr-square:before {
+  content: "\f174"; }
+
+.fa-trello:before {
+  content: "\f181"; }
+
+.fa-creative-commons-nc-jp:before {
+  content: "\f4ea"; }
+
+.fa-get-pocket:before {
+  content: "\f265"; }
+
+.fa-perbyte:before {
+  content: "\e083"; }
+
+.fa-grunt:before {
+  content: "\f3ad"; }
+
+.fa-weebly:before {
+  content: "\f5cc"; }
+
+.fa-connectdevelop:before {
+  content: "\f20e"; }
+
+.fa-leanpub:before {
+  content: "\f212"; }
+
+.fa-black-tie:before {
+  content: "\f27e"; }
+
+.fa-themeco:before {
+  content: "\f5c6"; }
+
+.fa-python:before {
+  content: "\f3e2"; }
+
+.fa-android:before {
+  content: "\f17b"; }
+
+.fa-bots:before {
+  content: "\e340"; }
+
+.fa-free-code-camp:before {
+  content: "\f2c5"; }
+
+.fa-hornbill:before {
+  content: "\f592"; }
+
+.fa-js:before {
+  content: "\f3b8"; }
+
+.fa-ideal:before {
+  content: "\e013"; }
+
+.fa-git:before {
+  content: "\f1d3"; }
+
+.fa-dev:before {
+  content: "\f6cc"; }
+
+.fa-sketch:before {
+  content: "\f7c6"; }
+
+.fa-yandex-international:before {
+  content: "\f414"; }
+
+.fa-cc-amex:before {
+  content: "\f1f3"; }
+
+.fa-uber:before {
+  content: "\f402"; }
+
+.fa-github:before {
+  content: "\f09b"; }
+
+.fa-php:before {
+  content: "\f457"; }
+
+.fa-alipay:before {
+  content: "\f642"; }
+
+.fa-youtube:before {
+  content: "\f167"; }
+
+.fa-skyatlas:before {
+  content: "\f216"; }
+
+.fa-firefox-browser:before {
+  content: "\e007"; }
+
+.fa-replyd:before {
+  content: "\f3e6"; }
+
+.fa-suse:before {
+  content: "\f7d6"; }
+
+.fa-jenkins:before {
+  content: "\f3b6"; }
+
+.fa-twitter:before {
+  content: "\f099"; }
+
+.fa-rockrms:before {
+  content: "\f3e9"; }
+
+.fa-pinterest:before {
+  content: "\f0d2"; }
+
+.fa-buffer:before {
+  content: "\f837"; }
+
+.fa-npm:before {
+  content: "\f3d4"; }
+
+.fa-yammer:before {
+  content: "\f840"; }
+
+.fa-btc:before {
+  content: "\f15a"; }
+
+.fa-dribbble:before {
+  content: "\f17d"; }
+
+.fa-stumbleupon-circle:before {
+  content: "\f1a3"; }
+
+.fa-internet-explorer:before {
+  content: "\f26b"; }
+
+.fa-stubber:before {
+  content: "\e5c7"; }
+
+.fa-telegram:before {
+  content: "\f2c6"; }
+
+.fa-telegram-plane:before {
+  content: "\f2c6"; }
+
+.fa-old-republic:before {
+  content: "\f510"; }
+
+.fa-odysee:before {
+  content: "\e5c6"; }
+
+.fa-square-whatsapp:before {
+  content: "\f40c"; }
+
+.fa-whatsapp-square:before {
+  content: "\f40c"; }
+
+.fa-node-js:before {
+  content: "\f3d3"; }
+
+.fa-edge-legacy:before {
+  content: "\e078"; }
+
+.fa-slack:before {
+  content: "\f198"; }
+
+.fa-slack-hash:before {
+  content: "\f198"; }
+
+.fa-medrt:before {
+  content: "\f3c8"; }
+
+.fa-usb:before {
+  content: "\f287"; }
+
+.fa-tumblr:before {
+  content: "\f173"; }
+
+.fa-vaadin:before {
+  content: "\f408"; }
+
+.fa-quora:before {
+  content: "\f2c4"; }
+
+.fa-square-x-twitter:before {
+  content: "\e61a"; }
+
+.fa-reacteurope:before {
+  content: "\f75d"; }
+
+.fa-medium:before {
+  content: "\f23a"; }
+
+.fa-medium-m:before {
+  content: "\f23a"; }
+
+.fa-amilia:before {
+  content: "\f36d"; }
+
+.fa-mixcloud:before {
+  content: "\f289"; }
+
+.fa-flipboard:before {
+  content: "\f44d"; }
+
+.fa-viacoin:before {
+  content: "\f237"; }
+
+.fa-critical-role:before {
+  content: "\f6c9"; }
+
+.fa-sitrox:before {
+  content: "\e44a"; }
+
+.fa-discourse:before {
+  content: "\f393"; }
+
+.fa-joomla:before {
+  content: "\f1aa"; }
+
+.fa-mastodon:before {
+  content: "\f4f6"; }
+
+.fa-airbnb:before {
+  content: "\f834"; }
+
+.fa-wolf-pack-battalion:before {
+  content: "\f514"; }
+
+.fa-buy-n-large:before {
+  content: "\f8a6"; }
+
+.fa-gulp:before {
+  content: "\f3ae"; }
+
+.fa-creative-commons-sampling-plus:before {
+  content: "\f4f1"; }
+
+.fa-strava:before {
+  content: "\f428"; }
+
+.fa-ember:before {
+  content: "\f423"; }
+
+.fa-canadian-maple-leaf:before {
+  content: "\f785"; }
+
+.fa-teamspeak:before {
+  content: "\f4f9"; }
+
+.fa-pushed:before {
+  content: "\f3e1"; }
+
+.fa-wordpress-simple:before {
+  content: "\f411"; }
+
+.fa-nutritionix:before {
+  content: "\f3d6"; }
+
+.fa-wodu:before {
+  content: "\e088"; }
+
+.fa-google-pay:before {
+  content: "\e079"; }
+
+.fa-intercom:before {
+  content: "\f7af"; }
+
+.fa-zhihu:before {
+  content: "\f63f"; }
+
+.fa-korvue:before {
+  content: "\f42f"; }
+
+.fa-pix:before {
+  content: "\e43a"; }
+
+.fa-steam-symbol:before {
+  content: "\f3f6"; }
+:root, :host {
+  --fa-style-family-classic: 'Font Awesome 6 Free';
+  --fa-font-regular: normal 400 1em/1 'Font Awesome 6 Free'; }
+
+@font-face {
+  font-family: 'Font Awesome 6 Free';
+  font-style: normal;
+  font-weight: 400;
+  font-display: block;
+  src: url("../webfonts/fa-regular-400.woff2") format("woff2"), url("../webfonts/fa-regular-400.ttf") format("truetype"); }
+
+.far,
+.fa-regular {
+  font-weight: 400; }
+:root, :host {
+  --fa-style-family-classic: 'Font Awesome 6 Free';
+  --fa-font-solid: normal 900 1em/1 'Font Awesome 6 Free'; }
+
+@font-face {
+  font-family: 'Font Awesome 6 Free';
+  font-style: normal;
+  font-weight: 900;
+  font-display: block;
+  src: url("../webfonts/fa-solid-900.woff2") format("woff2"), url("../webfonts/fa-solid-900.ttf") format("truetype"); }
+
+.fas,
+.fa-solid {
+  font-weight: 900; }
+@font-face {
+  font-family: 'Font Awesome 5 Brands';
+  font-display: block;
+  font-weight: 400;
+  src: url("../webfonts/fa-brands-400.woff2") format("woff2"), url("../webfonts/fa-brands-400.ttf") format("truetype"); }
+
+@font-face {
+  font-family: 'Font Awesome 5 Free';
+  font-display: block;
+  font-weight: 900;
+  src: url("../webfonts/fa-solid-900.woff2") format("woff2"), url("../webfonts/fa-solid-900.ttf") format("truetype"); }
+
+@font-face {
+  font-family: 'Font Awesome 5 Free';
+  font-display: block;
+  font-weight: 400;
+  src: url("../webfonts/fa-regular-400.woff2") format("woff2"), url("../webfonts/fa-regular-400.ttf") format("truetype"); }
+@font-face {
+  font-family: 'FontAwesome';
+  font-display: block;
+  src: url("../webfonts/fa-solid-900.woff2") format("woff2"), url("../webfonts/fa-solid-900.ttf") format("truetype"); }
+
+@font-face {
+  font-family: 'FontAwesome';
+  font-display: block;
+  src: url("../webfonts/fa-brands-400.woff2") format("woff2"), url("../webfonts/fa-brands-400.ttf") format("truetype"); }
+
+@font-face {
+  font-family: 'FontAwesome';
+  font-display: block;
+  src: url("../webfonts/fa-regular-400.woff2") format("woff2"), url("../webfonts/fa-regular-400.ttf") format("truetype"); }
+
+@font-face {
+  font-family: 'FontAwesome';
+  font-display: block;
+  src: url("../webfonts/fa-v4compatibility.woff2") format("woff2"), url("../webfonts/fa-v4compatibility.ttf") format("truetype"); }
diff --git a/deps/font-awesome-6.4.2/css/all.min.css b/deps/font-awesome-6.4.2/css/all.min.css
new file mode 100644
index 00000000..6604a067
--- /dev/null
+++ b/deps/font-awesome-6.4.2/css/all.min.css
@@ -0,0 +1,9 @@
+/*!
+ * Font Awesome Free 6.4.2 by @fontawesome - https://fontawesome.com
+ * License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License)
+ * Copyright 2023 Fonticons, Inc.
+ */
+.fa{font-family:var(--fa-style-family,"Font Awesome 6 Free");font-weight:var(--fa-style,900)}.fa,.fa-brands,.fa-classic,.fa-regular,.fa-sharp,.fa-solid,.fab,.far,.fas{-moz-osx-font-smoothing:grayscale;-webkit-font-smoothing:antialiased;display:var(--fa-display,inline-block);font-style:normal;font-variant:normal;line-height:1;text-rendering:auto}.fa-classic,.fa-regular,.fa-solid,.far,.fas{font-family:"Font Awesome 6 Free"}.fa-brands,.fab{font-family:"Font Awesome 6 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diff --git a/deps/font-awesome-6.4.2/css/v4-shims.css b/deps/font-awesome-6.4.2/css/v4-shims.css
new file mode 100644
index 00000000..a85953d1
--- /dev/null
+++ b/deps/font-awesome-6.4.2/css/v4-shims.css
@@ -0,0 +1,2194 @@
+/*!
+ * Font Awesome Free 6.4.2 by @fontawesome - https://fontawesome.com
+ * License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License)
+ * Copyright 2023 Fonticons, Inc.
+ */
+.fa.fa-glass:before {
+  content: "\f000"; }
+
+.fa.fa-envelope-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-envelope-o:before {
+  content: "\f0e0"; }
+
+.fa.fa-star-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-star-o:before {
+  content: "\f005"; }
+
+.fa.fa-remove:before {
+  content: "\f00d"; }
+
+.fa.fa-close:before {
+  content: "\f00d"; }
+
+.fa.fa-gear:before {
+  content: "\f013"; }
+
+.fa.fa-trash-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-trash-o:before {
+  content: "\f2ed"; }
+
+.fa.fa-home:before {
+  content: "\f015"; }
+
+.fa.fa-file-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-file-o:before {
+  content: "\f15b"; }
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+.fa.fa-clock-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-clock-o:before {
+  content: "\f017"; }
+
+.fa.fa-arrow-circle-o-down {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-arrow-circle-o-down:before {
+  content: "\f358"; }
+
+.fa.fa-arrow-circle-o-up {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-arrow-circle-o-up:before {
+  content: "\f35b"; }
+
+.fa.fa-play-circle-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-play-circle-o:before {
+  content: "\f144"; }
+
+.fa.fa-repeat:before {
+  content: "\f01e"; }
+
+.fa.fa-rotate-right:before {
+  content: "\f01e"; }
+
+.fa.fa-refresh:before {
+  content: "\f021"; }
+
+.fa.fa-list-alt {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-list-alt:before {
+  content: "\f022"; }
+
+.fa.fa-dedent:before {
+  content: "\f03b"; }
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+.fa.fa-video-camera:before {
+  content: "\f03d"; }
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+.fa.fa-picture-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+  content: "\f03e"; }
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+.fa.fa-photo {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-photo:before {
+  content: "\f03e"; }
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+.fa.fa-image {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-image:before {
+  content: "\f03e"; }
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+.fa.fa-map-marker:before {
+  content: "\f3c5"; }
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+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-pencil-square-o:before {
+  content: "\f044"; }
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+.fa.fa-edit {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-edit:before {
+  content: "\f044"; }
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+.fa.fa-share-square-o:before {
+  content: "\f14d"; }
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+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-check-square-o:before {
+  content: "\f14a"; }
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+.fa.fa-arrows:before {
+  content: "\f0b2"; }
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+.fa.fa-times-circle-o {
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+  font-weight: 400; }
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+.fa.fa-times-circle-o:before {
+  content: "\f057"; }
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+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-check-circle-o:before {
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+.fa.fa-compress:before {
+  content: "\f422"; }
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+.fa.fa-eye {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-eye-slash {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
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+.fa.fa-warning:before {
+  content: "\f071"; }
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+.fa.fa-calendar:before {
+  content: "\f073"; }
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+  content: "\f338"; }
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+  content: "\f337"; }
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+.fa.fa-bar-chart:before {
+  content: "\e0e3"; }
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+.fa.fa-bar-chart-o:before {
+  content: "\e0e3"; }
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+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
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+  font-weight: 400; }
+
+.fa.fa-pause-circle-o:before {
+  content: "\f28b"; }
+
+.fa.fa-stop-circle-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-stop-circle-o:before {
+  content: "\f28d"; }
+
+.fa.fa-bluetooth {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-bluetooth-b {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-gitlab {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-wpbeginner {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-wpforms {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-envira {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-wheelchair-alt {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-wheelchair-alt:before {
+  content: "\f368"; }
+
+.fa.fa-question-circle-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-question-circle-o:before {
+  content: "\f059"; }
+
+.fa.fa-volume-control-phone:before {
+  content: "\f2a0"; }
+
+.fa.fa-asl-interpreting:before {
+  content: "\f2a3"; }
+
+.fa.fa-deafness:before {
+  content: "\f2a4"; }
+
+.fa.fa-hard-of-hearing:before {
+  content: "\f2a4"; }
+
+.fa.fa-glide {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-glide-g {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-signing:before {
+  content: "\f2a7"; }
+
+.fa.fa-viadeo {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-viadeo-square {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-viadeo-square:before {
+  content: "\f2aa"; }
+
+.fa.fa-snapchat {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-snapchat-ghost {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-snapchat-ghost:before {
+  content: "\f2ab"; }
+
+.fa.fa-snapchat-square {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-snapchat-square:before {
+  content: "\f2ad"; }
+
+.fa.fa-pied-piper {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-first-order {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-yoast {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-themeisle {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-google-plus-official {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-google-plus-official:before {
+  content: "\f2b3"; }
+
+.fa.fa-google-plus-circle {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-google-plus-circle:before {
+  content: "\f2b3"; }
+
+.fa.fa-font-awesome {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-fa {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-fa:before {
+  content: "\f2b4"; }
+
+.fa.fa-handshake-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-handshake-o:before {
+  content: "\f2b5"; }
+
+.fa.fa-envelope-open-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-envelope-open-o:before {
+  content: "\f2b6"; }
+
+.fa.fa-linode {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-address-book-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-address-book-o:before {
+  content: "\f2b9"; }
+
+.fa.fa-vcard:before {
+  content: "\f2bb"; }
+
+.fa.fa-address-card-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-address-card-o:before {
+  content: "\f2bb"; }
+
+.fa.fa-vcard-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-vcard-o:before {
+  content: "\f2bb"; }
+
+.fa.fa-user-circle-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-user-circle-o:before {
+  content: "\f2bd"; }
+
+.fa.fa-user-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-user-o:before {
+  content: "\f007"; }
+
+.fa.fa-id-badge {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-drivers-license:before {
+  content: "\f2c2"; }
+
+.fa.fa-id-card-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-id-card-o:before {
+  content: "\f2c2"; }
+
+.fa.fa-drivers-license-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-drivers-license-o:before {
+  content: "\f2c2"; }
+
+.fa.fa-quora {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-free-code-camp {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-telegram {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-thermometer-4:before {
+  content: "\f2c7"; }
+
+.fa.fa-thermometer:before {
+  content: "\f2c7"; }
+
+.fa.fa-thermometer-3:before {
+  content: "\f2c8"; }
+
+.fa.fa-thermometer-2:before {
+  content: "\f2c9"; }
+
+.fa.fa-thermometer-1:before {
+  content: "\f2ca"; }
+
+.fa.fa-thermometer-0:before {
+  content: "\f2cb"; }
+
+.fa.fa-bathtub:before {
+  content: "\f2cd"; }
+
+.fa.fa-s15:before {
+  content: "\f2cd"; }
+
+.fa.fa-window-maximize {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-window-restore {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-times-rectangle:before {
+  content: "\f410"; }
+
+.fa.fa-window-close-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-window-close-o:before {
+  content: "\f410"; }
+
+.fa.fa-times-rectangle-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-times-rectangle-o:before {
+  content: "\f410"; }
+
+.fa.fa-bandcamp {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-grav {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-etsy {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-imdb {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-ravelry {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-eercast {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-eercast:before {
+  content: "\f2da"; }
+
+.fa.fa-snowflake-o {
+  font-family: 'Font Awesome 6 Free';
+  font-weight: 400; }
+
+.fa.fa-snowflake-o:before {
+  content: "\f2dc"; }
+
+.fa.fa-superpowers {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-wpexplorer {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
+
+.fa.fa-meetup {
+  font-family: 'Font Awesome 6 Brands';
+  font-weight: 400; }
diff --git a/deps/font-awesome-6.4.2/css/v4-shims.min.css b/deps/font-awesome-6.4.2/css/v4-shims.min.css
new file mode 100644
index 00000000..64e4e8d8
--- /dev/null
+++ b/deps/font-awesome-6.4.2/css/v4-shims.min.css
@@ -0,0 +1,6 @@
+/*!
+ * Font Awesome Free 6.4.2 by @fontawesome - https://fontawesome.com
+ * License - https://fontawesome.com/license/free (Icons: CC BY 4.0, Fonts: SIL OFL 1.1, Code: MIT License)
+ * Copyright 2023 Fonticons, Inc.
+ */
+.fa.fa-glass:before{content:"\f000"}.fa.fa-envelope-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-envelope-o:before{content:"\f0e0"}.fa.fa-star-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-star-o:before{content:"\f005"}.fa.fa-close:before,.fa.fa-remove:before{content:"\f00d"}.fa.fa-gear:before{content:"\f013"}.fa.fa-trash-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-trash-o:before{content:"\f2ed"}.fa.fa-home:before{content:"\f015"}.fa.fa-file-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-file-o:before{content:"\f15b"}.fa.fa-clock-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-clock-o:before{content:"\f017"}.fa.fa-arrow-circle-o-down{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-arrow-circle-o-down:before{content:"\f358"}.fa.fa-arrow-circle-o-up{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-arrow-circle-o-up:before{content:"\f35b"}.fa.fa-play-circle-o{font-family:"Font Awesome 6 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Awesome 6 Free";font-weight:400}.fa.fa-check-square-o:before{content:"\f14a"}.fa.fa-arrows:before{content:"\f0b2"}.fa.fa-times-circle-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-times-circle-o:before{content:"\f057"}.fa.fa-check-circle-o{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-check-circle-o:before{content:"\f058"}.fa.fa-mail-forward:before{content:"\f064"}.fa.fa-expand:before{content:"\f424"}.fa.fa-compress:before{content:"\f422"}.fa.fa-eye,.fa.fa-eye-slash{font-family:"Font Awesome 6 Free";font-weight:400}.fa.fa-warning:before{content:"\f071"}.fa.fa-calendar:before{content:"\f073"}.fa.fa-arrows-v:before{content:"\f338"}.fa.fa-arrows-h:before{content:"\f337"}.fa.fa-bar-chart-o:before,.fa.fa-bar-chart:before{content:"\e0e3"}.fa.fa-twitter-square{font-family:"Font Awesome 6 Brands";font-weight:400}.fa.fa-twitter-square:before{content:"\f081"}.fa.fa-facebook-square{font-family:"Font Awesome 6 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new file mode 100644
index 00000000..433069fd
--- /dev/null
+++ b/deps/headroom-0.11.0/headroom.min.js
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+/*!
+ * headroom.js v0.11.0 - Give your page some headroom. Hide your header until you need it
+ * Copyright (c) 2020 Nick Williams - http://wicky.nillia.ms/headroom.js
+ * License: MIT
+ */
+
+!function(t,n){"object"==typeof exports&&"undefined"!=typeof module?module.exports=n():"function"==typeof define&&define.amd?define(n):(t=t||self).Headroom=n()}(this,function(){"use strict";function t(){return"undefined"!=typeof window}function d(t){return function(t){return t&&t.document&&function(t){return 9===t.nodeType}(t.document)}(t)?function(t){var n=t.document,o=n.body,s=n.documentElement;return{scrollHeight:function(){return Math.max(o.scrollHeight,s.scrollHeight,o.offsetHeight,s.offsetHeight,o.clientHeight,s.clientHeight)},height:function(){return t.innerHeight||s.clientHeight||o.clientHeight},scrollY:function(){return void 0!==t.pageYOffset?t.pageYOffset:(s||o.parentNode||o).scrollTop}}}(t):function(t){return{scrollHeight:function(){return Math.max(t.scrollHeight,t.offsetHeight,t.clientHeight)},height:function(){return Math.max(t.offsetHeight,t.clientHeight)},scrollY:function(){return t.scrollTop}}}(t)}function n(t,s,e){var n,o=function(){var n=!1;try{var t={get passive(){n=!0}};window.addEventListener("test",t,t),window.removeEventListener("test",t,t)}catch(t){n=!1}return n}(),i=!1,r=d(t),l=r.scrollY(),a={};function c(){var t=Math.round(r.scrollY()),n=r.height(),o=r.scrollHeight();a.scrollY=t,a.lastScrollY=l,a.direction=l<t?"down":"up",a.distance=Math.abs(t-l),a.isOutOfBounds=t<0||o<t+n,a.top=t<=s.offset,a.bottom=o<=t+n,a.toleranceExceeded=a.distance>s.tolerance[a.direction],e(a),l=t,i=!1}function h(){i||(i=!0,n=requestAnimationFrame(c))}var u=!!o&&{passive:!0,capture:!1};return t.addEventListener("scroll",h,u),c(),{destroy:function(){cancelAnimationFrame(n),t.removeEventListener("scroll",h,u)}}}function o(t,n){n=n||{},Object.assign(this,o.options,n),this.classes=Object.assign({},o.options.classes,n.classes),this.elem=t,this.tolerance=function(t){return t===Object(t)?t:{down:t,up:t}}(this.tolerance),this.initialised=!1,this.frozen=!1}return o.prototype={constructor:o,init:function(){return o.cutsTheMustard&&!this.initialised&&(this.addClass("initial"),this.initialised=!0,setTimeout(function(t){t.scrollTracker=n(t.scroller,{offset:t.offset,tolerance:t.tolerance},t.update.bind(t))},100,this)),this},destroy:function(){this.initialised=!1,Object.keys(this.classes).forEach(this.removeClass,this),this.scrollTracker.destroy()},unpin:function(){!this.hasClass("pinned")&&this.hasClass("unpinned")||(this.addClass("unpinned"),this.removeClass("pinned"),this.onUnpin&&this.onUnpin.call(this))},pin:function(){this.hasClass("unpinned")&&(this.addClass("pinned"),this.removeClass("unpinned"),this.onPin&&this.onPin.call(this))},freeze:function(){this.frozen=!0,this.addClass("frozen")},unfreeze:function(){this.frozen=!1,this.removeClass("frozen")},top:function(){this.hasClass("top")||(this.addClass("top"),this.removeClass("notTop"),this.onTop&&this.onTop.call(this))},notTop:function(){this.hasClass("notTop")||(this.addClass("notTop"),this.removeClass("top"),this.onNotTop&&this.onNotTop.call(this))},bottom:function(){this.hasClass("bottom")||(this.addClass("bottom"),this.removeClass("notBottom"),this.onBottom&&this.onBottom.call(this))},notBottom:function(){this.hasClass("notBottom")||(this.addClass("notBottom"),this.removeClass("bottom"),this.onNotBottom&&this.onNotBottom.call(this))},shouldUnpin:function(t){return"down"===t.direction&&!t.top&&t.toleranceExceeded},shouldPin:function(t){return"up"===t.direction&&t.toleranceExceeded||t.top},addClass:function(t){this.elem.classList.add.apply(this.elem.classList,this.classes[t].split(" "))},removeClass:function(t){this.elem.classList.remove.apply(this.elem.classList,this.classes[t].split(" "))},hasClass:function(t){return this.classes[t].split(" ").every(function(t){return this.classList.contains(t)},this.elem)},update:function(t){t.isOutOfBounds||!0!==this.frozen&&(t.top?this.top():this.notTop(),t.bottom?this.bottom():this.notBottom(),this.shouldUnpin(t)?this.unpin():this.shouldPin(t)&&this.pin())}},o.options={tolerance:{up:0,down:0},offset:0,scroller:t()?window:null,classes:{frozen:"headroom--frozen",pinned:"headroom--pinned",unpinned:"headroom--unpinned",top:"headroom--top",notTop:"headroom--not-top",bottom:"headroom--bottom",notBottom:"headroom--not-bottom",initial:"headroom"}},o.cutsTheMustard=!!(t()&&function(){}.bind&&"classList"in document.documentElement&&Object.assign&&Object.keys&&requestAnimationFrame),o});
\ No newline at end of file
diff --git a/deps/headroom-0.11.0/jQuery.headroom.min.js b/deps/headroom-0.11.0/jQuery.headroom.min.js
new file mode 100644
index 00000000..17f70c9e
--- /dev/null
+++ b/deps/headroom-0.11.0/jQuery.headroom.min.js
@@ -0,0 +1,7 @@
+/*!
+ * headroom.js v0.9.4 - Give your page some headroom. Hide your header until you need it
+ * Copyright (c) 2017 Nick Williams - http://wicky.nillia.ms/headroom.js
+ * License: MIT
+ */
+
+!function(a){a&&(a.fn.headroom=function(b){return this.each(function(){var c=a(this),d=c.data("headroom"),e="object"==typeof b&&b;e=a.extend(!0,{},Headroom.options,e),d||(d=new Headroom(this,e),d.init(),c.data("headroom",d)),"string"==typeof b&&(d[b](),"destroy"===b&&c.removeData("headroom"))})},a("[data-headroom]").each(function(){var b=a(this);b.headroom(b.data())}))}(window.Zepto||window.jQuery);
\ No newline at end of file
diff --git a/deps/search-1.0.0/autocomplete.jquery.min.js b/deps/search-1.0.0/autocomplete.jquery.min.js
new file mode 100644
index 00000000..fb63a6a2
--- /dev/null
+++ b/deps/search-1.0.0/autocomplete.jquery.min.js
@@ -0,0 +1,7 @@
+/*!
+ * autocomplete.js 0.38.0
+ * https://github.com/algolia/autocomplete.js
+ * Copyright 2020 Algolia, Inc. and other contributors; Licensed MIT
+ */
+!function(a){function b(d){if(c[d])return c[d].exports;var e=c[d]={exports:{},id:d,loaded:!1};return a[d].call(e.exports,e,e.exports,b),e.loaded=!0,e.exports}var c={};b.m=a,b.c=c,b.p="",b(0)}([function(a,b,c){"use strict";a.exports=c(1)},function(a,b,c){"use strict";var d=c(2),e=c(3);d.element=e;var f=c(4);f.isArray=e.isArray,f.isFunction=e.isFunction,f.isObject=e.isPlainObject,f.bind=e.proxy,f.each=function(a,b){function c(a,c){return b(c,a)}e.each(a,c)},f.map=e.map,f.mixin=e.extend,f.Event=e.Event;var g,h,i,j=c(5),k=c(6);g=e.fn.autocomplete,h="aaAutocomplete",i={initialize:function(a,b){function c(){var c,d=e(this),f=new k({el:d});c=new j({input:d,eventBus:f,dropdownMenuContainer:a.dropdownMenuContainer,hint:void 0===a.hint||!!a.hint,minLength:a.minLength,autoselect:a.autoselect,autoselectOnBlur:a.autoselectOnBlur,tabAutocomplete:a.tabAutocomplete,openOnFocus:a.openOnFocus,templates:a.templates,debug:a.debug,clearOnSelected:a.clearOnSelected,cssClasses:a.cssClasses,datasets:b,keyboardShortcuts:a.keyboardShortcuts,appendTo:a.appendTo,autoWidth:a.autoWidth}),d.data(h,c)}return b=f.isArray(b)?b:[].slice.call(arguments,1),a=a||{},this.each(c)},open:function(){function a(){var a,b=e(this);(a=b.data(h))&&a.open()}return this.each(a)},close:function(){function a(){var a,b=e(this);(a=b.data(h))&&a.close()}return this.each(a)},val:function(a){function b(){var b,c=e(this);(b=c.data(h))&&b.setVal(a)}return arguments.length?this.each(b):function(a){var b,c;return(b=a.data(h))&&(c=b.getVal()),c}(this.first())},destroy:function(){function a(){var a,b=e(this);(a=b.data(h))&&(a.destroy(),b.removeData(h))}return this.each(a)}},e.fn.autocomplete=function(a){var b;return i[a]&&"initialize"!==a?(b=this.filter(function(){return!!e(this).data(h)}),i[a].apply(b,[].slice.call(arguments,1))):i.initialize.apply(this,arguments)},e.fn.autocomplete.noConflict=function(){return e.fn.autocomplete=g,this},e.fn.autocomplete.sources=j.sources,e.fn.autocomplete.escapeHighlightedString=f.escapeHighlightedString,a.exports=e.fn.autocomplete},function(a,b){"use strict";a.exports={element:null}},function(a,b){a.exports=jQuery},function(a,b,c){"use strict";function d(a){return a.replace(/[\-\[\]\/\{\}\(\)\*\+\?\.\\\^\$\|]/g,"\\$&")}var e=c(2);a.exports={isArray:null,isFunction:null,isObject:null,bind:null,each:null,map:null,mixin:null,isMsie:function(a){if(void 0===a&&(a=navigator.userAgent),/(msie|trident)/i.test(a)){var b=a.match(/(msie |rv:)(\d+(.\d+)?)/i);if(b)return b[2]}return!1},escapeRegExChars:function(a){return a.replace(/[\-\[\]\/\{\}\(\)\*\+\?\.\\\^\$\|]/g,"\\$&")},isNumber:function(a){return"number"==typeof a},toStr:function(a){return void 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f=document.createElement("div");f.appendChild(document.createTextNode(c));var g=document.createElement("div");return g.appendChild(document.createTextNode(a)),g.innerHTML.replace(RegExp(d(e.innerHTML),"g"),b).replace(RegExp(d(f.innerHTML),"g"),c)}}},function(a,b,c){"use strict";function d(a){var b,c;if(a=a||{},a.input||i.error("missing input"),this.isActivated=!1,this.debug=!!a.debug,this.autoselect=!!a.autoselect,this.autoselectOnBlur=!!a.autoselectOnBlur,this.openOnFocus=!!a.openOnFocus,this.minLength=i.isNumber(a.minLength)?a.minLength:1,this.autoWidth=void 0===a.autoWidth||!!a.autoWidth,this.clearOnSelected=!!a.clearOnSelected,this.tabAutocomplete=void 0===a.tabAutocomplete||!!a.tabAutocomplete,a.hint=!!a.hint,a.hint&&a.appendTo)throw new Error("[autocomplete.js] hint and appendTo options can't be used at the same 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d.Dropdown({appendTo:a.appendTo,wrapper:this.$node,menu:b,datasets:a.datasets,templates:a.templates,cssClasses:a.cssClasses,minLength:this.minLength}).onSync("suggestionClicked",this._onSuggestionClicked,this).onSync("cursorMoved",this._onCursorMoved,this).onSync("cursorRemoved",this._onCursorRemoved,this).onSync("opened",this._onOpened,this).onSync("closed",this._onClosed,this).onSync("shown",this._onShown,this).onSync("empty",this._onEmpty,this).onSync("redrawn",this._onRedrawn,this).onAsync("datasetRendered",this._onDatasetRendered,this),this.input=new 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g=n.dropdown.replace("%PREFIX%",a.cssClasses.prefix).replace("%DROPDOWN_MENU%",a.cssClasses.dropdownMenu);d=j.element(g).css(a.css.dropdown).attr({role:"listbox",id:a.listboxId}),a.templates&&a.templates.dropdownMenu&&d.html(i.templatify(a.templates.dropdownMenu)()),e=b.clone().css(a.css.hint).css(f(b)),e.val("").addClass(i.className(a.cssClasses.prefix,a.cssClasses.hint,!0)).removeAttr("id name placeholder required").prop("readonly",!0).attr({"aria-hidden":"true",autocomplete:"off",spellcheck:"false",tabindex:-1}),e.removeData&&e.removeData(),b.data(h,{"aria-autocomplete":b.attr("aria-autocomplete"),"aria-expanded":b.attr("aria-expanded"),"aria-owns":b.attr("aria-owns"),autocomplete:b.attr("autocomplete"),dir:b.attr("dir"),role:b.attr("role"),spellcheck:b.attr("spellcheck"),style:b.attr("style"),type:b.attr("type")}),b.addClass(i.className(a.cssClasses.prefix,a.cssClasses.input,!0)).attr({autocomplete:"off",spellcheck:!1,role:"combobox","aria-autocomplete":a.datasets&&a.datasets[0]&&a.datasets[0].displayKey?"both":"list","aria-expanded":"false","aria-label":a.ariaLabel,"aria-owns":a.listboxId}).css(a.hint?a.css.input:a.css.inputWithNoHint);try{b.attr("dir")||b.attr("dir","auto")}catch(a){}return c=a.appendTo?c.appendTo(j.element(a.appendTo).eq(0)).eq(0):b.wrap(c).parent(),c.prepend(a.hint?e:null).append(d),{wrapper:c,input:b,hint:e,menu:d}}function f(a){return{backgroundAttachment:a.css("background-attachment"),backgroundClip:a.css("background-clip"),backgroundColor:a.css("background-color"),backgroundImage:a.css("background-image"),backgroundOrigin:a.css("background-origin"),backgroundPosition:a.css("background-position"),backgroundRepeat:a.css("background-repeat"),backgroundSize:a.css("background-size")}}function g(a,b){var c=a.find(i.className(b.prefix,b.input));i.each(c.data(h),function(a,b){void 0===a?c.removeAttr(b):c.attr(b,a)}),c.detach().removeClass(i.className(b.prefix,b.input,!0)).insertAfter(a),c.removeData&&c.removeData(h),a.remove()}var h="aaAttrs",i=c(4),j=c(2),k=c(6),l=c(7),m=c(16),n=c(18),o=c(19);i.mixin(d.prototype,{_bindKeyboardShortcuts:function(a){if(a.keyboardShortcuts){var b=this.$input,c=[];i.each(a.keyboardShortcuts,function(a){"string"==typeof a&&(a=a.toUpperCase().charCodeAt(0)),c.push(a)}),j.element(document).keydown(function(a){var d=a.target||a.srcElement,e=d.tagName;if(!d.isContentEditable&&"INPUT"!==e&&"SELECT"!==e&&"TEXTAREA"!==e){var f=a.which||a.keyCode;c.indexOf(f)!==-1&&(b.focus(),a.stopPropagation(),a.preventDefault())}})}},_onSuggestionClicked:function(a,b){var c,d={selectionMethod:"click"};(c=this.dropdown.getDatumForSuggestion(b))&&this._select(c,d)},_onCursorMoved:function(a,b){var c=this.dropdown.getDatumForCursor(),d=this.dropdown.getCurrentCursor().attr("id");this.input.setActiveDescendant(d),c&&(b&&this.input.setInputValue(c.value,!0),this.eventBus.trigger("cursorchanged",c.raw,c.datasetName))},_onCursorRemoved:function(){this.input.resetInputValue(),this._updateHint(),this.eventBus.trigger("cursorremoved")},_onDatasetRendered:function(){this._updateHint(),this.eventBus.trigger("updated")},_onOpened:function(){this._updateHint(),this.input.expand(),this.eventBus.trigger("opened")},_onEmpty:function(){this.eventBus.trigger("empty")},_onRedrawn:function(){this.$node.css("top","0px"),this.$node.css("left","0px");var a=this.$input[0].getBoundingClientRect();this.autoWidth&&this.$node.css("width",a.width+"px");var b=this.$node[0].getBoundingClientRect(),c=a.bottom-b.top;this.$node.css("top",c+"px");var d=a.left-b.left;this.$node.css("left",d+"px"),this.eventBus.trigger("redrawn")},_onShown:function(){this.eventBus.trigger("shown"),this.autoselect&&this.dropdown.cursorTopSuggestion()},_onClosed:function(){this.input.clearHint(),this.input.removeActiveDescendant(),this.input.collapse(),this.eventBus.trigger("closed")},_onFocused:function(){if(this.isActivated=!0,this.openOnFocus){var a=this.input.getQuery();a.length>=this.minLength?this.dropdown.update(a):this.dropdown.empty(),this.dropdown.open()}},_onBlurred:function(){var a,b;a=this.dropdown.getDatumForCursor(),b=this.dropdown.getDatumForTopSuggestion();var c={selectionMethod:"blur"};this.debug||(this.autoselectOnBlur&&a?this._select(a,c):this.autoselectOnBlur&&b?this._select(b,c):(this.isActivated=!1,this.dropdown.empty(),this.dropdown.close()))},_onEnterKeyed:function(a,b){var c,d;c=this.dropdown.getDatumForCursor(),d=this.dropdown.getDatumForTopSuggestion();var e={selectionMethod:"enterKey"};c?(this._select(c,e),b.preventDefault()):this.autoselect&&d&&(this._select(d,e),b.preventDefault())},_onTabKeyed:function(a,b){if(!this.tabAutocomplete)return void this.dropdown.close();var c,d={selectionMethod:"tabKey"};(c=this.dropdown.getDatumForCursor())?(this._select(c,d),b.preventDefault()):this._autocomplete(!0)},_onEscKeyed:function(){this.dropdown.close(),this.input.resetInputValue()},_onUpKeyed:function(){var a=this.input.getQuery();this.dropdown.isEmpty&&a.length>=this.minLength?this.dropdown.update(a):this.dropdown.moveCursorUp(),this.dropdown.open()},_onDownKeyed:function(){var 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a=this.input.getInputValue();a.length>=this.minLength?this.dropdown.update(a):this.dropdown.empty()}this.dropdown.open()},close:function(){this.dropdown.close()},setVal:function(a){a=i.toStr(a),this.isActivated?this.input.setInputValue(a):(this.input.setQuery(a),this.input.setInputValue(a,!0)),this._setLanguageDirection()},getVal:function(){return this.input.getQuery()},destroy:function(){this.input.destroy(),this.dropdown.destroy(),g(this.$node,this.cssClasses),this.$node=null},getWrapper:function(){return this.dropdown.$container[0]}}),d.Dropdown=m,d.Input=l,d.sources=c(20),a.exports=d},function(a,b,c){"use strict";function d(a){a&&a.el||e.error("EventBus initialized without el"),this.$el=f.element(a.el)}var e=c(4),f=c(2);e.mixin(d.prototype,{trigger:function(a,b,c,d){var f=e.Event("autocomplete:"+a);return this.$el.trigger(f,[b,c,d]),f}}),a.exports=d},function(a,b,c){"use strict";function d(a){var b,c,d,f,g=this;a=a||{},a.input||i.error("input is 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+var c=[].slice.call(arguments,1);this.cacheSuggestions(a,b,c),this._render.apply(this,[a,b].concat(c))}}if(this.query=a,this.canceled=!1,this.shouldFetchFromCache(a))b.apply(this,[this.cachedSuggestions].concat(this.cachedRenderExtraArgs));else{var c=this,d=function(){c.canceled||c.source(a,b.bind(c))};if(this.debounce){var e=function(){c.debounceTimeout=null,d()};clearTimeout(this.debounceTimeout),this.debounceTimeout=setTimeout(e,this.debounce)}else d()}},cacheSuggestions:function(a,b,c){this.cachedQuery=a,this.cachedSuggestions=b,this.cachedRenderExtraArgs=c},shouldFetchFromCache:function(a){return this.cache&&this.cachedQuery===a&&this.cachedSuggestions&&this.cachedSuggestions.length},clearCachedSuggestions:function(){delete this.cachedQuery,delete this.cachedSuggestions,delete this.cachedRenderExtraArgs},cancel:function(){this.canceled=!0},clear:function(){this.$el&&(this.cancel(),this.$el.empty(),this.trigger("rendered",""))},isEmpty:function(){return this._isEmpty},destroy:function(){this.clearCachedSuggestions(),this.$el=null}}),a.exports=d},function(a,b){"use strict";a.exports={wrapper:'<span class="%ROOT%"></span>',dropdown:'<span class="%PREFIX%%DROPDOWN_MENU%"></span>',dataset:'<div class="%PREFIX%%DATASET%-%CLASS%"></div>',suggestions:'<span class="%PREFIX%%SUGGESTIONS%"></span>',suggestion:'<div class="%PREFIX%%SUGGESTION%"></div>'}},function(a,b,c){"use strict";var d=c(4),e={wrapper:{position:"relative",display:"inline-block"},hint:{position:"absolute",top:"0",left:"0",borderColor:"transparent",boxShadow:"none",opacity:"1"},input:{position:"relative",verticalAlign:"top",backgroundColor:"transparent"},inputWithNoHint:{position:"relative",verticalAlign:"top"},dropdown:{position:"absolute",top:"100%",left:"0",zIndex:"100",display:"none"},suggestions:{display:"block"},suggestion:{whiteSpace:"nowrap",cursor:"pointer"},suggestionChild:{whiteSpace:"normal"},ltr:{left:"0",right:"auto"},rtl:{left:"auto",right:"0"},defaultClasses:{root:"algolia-autocomplete",prefix:"aa",noPrefix:!1,dropdownMenu:"dropdown-menu",input:"input",hint:"hint",suggestions:"suggestions",suggestion:"suggestion",cursor:"cursor",dataset:"dataset",empty:"empty"},appendTo:{wrapper:{position:"absolute",zIndex:"100",display:"none"},input:{},inputWithNoHint:{},dropdown:{display:"block"}}};d.isMsie()&&d.mixin(e.input,{backgroundImage:"url(data:image/gif;base64,R0lGODlhAQABAIAAAAAAAP///yH5BAEAAAAALAAAAAABAAEAAAIBRAA7)"}),d.isMsie()&&d.isMsie()<=7&&d.mixin(e.input,{marginTop:"-1px"}),a.exports=e},function(a,b,c){"use strict";a.exports={hits:c(21),popularIn:c(24)}},function(a,b,c){"use strict";var d=c(4),e=c(22),f=c(23),g=function(){function a(a,d){return window.Promise.resolve().then(function(){return b.length&&(e=a.search(b),b=[]),e}).then(function(a){if(a)return c=a.results,c[d]})}var b=[],c=[],e=window.Promise.resolve();return function(c,e){return function(f,g){a(c.as,b.push({indexName:c.indexName,query:f,params:e})-1).then(function(a){a&&g(a.hits,a)}).catch(function(a){d.error(a.message)})}}}();a.exports=function(a,b){var c=f(a.as._ua);if(c&&c[0]>=3&&c[1]>20){var d="autocomplete.js "+e;a.as._ua.indexOf(d)===-1&&(a.as._ua+="; "+d)}return g(a,b)}},function(a,b){a.exports="0.38.0"},function(a,b){"use strict";a.exports=function(a){var b=a.match(/Algolia for JavaScript \((\d+\.)(\d+\.)(\d+)\)/)||a.match(/Algolia for vanilla JavaScript (\d+\.)(\d+\.)(\d+)/);if(b)return[b[1],b[2],b[3]]}},function(a,b,c){"use strict";var d=c(4),e=c(22),f=c(23);a.exports=function(a,b,c,g){function h(h,i){a.search(h,b,function(a,h){if(a)return void d.error(a.message);if(h.hits.length>0){var l=h.hits[0],m=d.mixin({hitsPerPage:0},c);delete m.source,delete m.index;var n=f(k.as._ua);return n&&n[0]>=3&&n[1]>20&&(b.additionalUA="autocomplete.js "+e),void k.search(j(l),m,function(a,b){if(a)return void d.error(a.message);var c=[];if(g.includeAll){var e=g.allTitle||"All departments";c.push(d.mixin({facet:{value:e,count:b.nbHits}},d.cloneDeep(l)))}d.each(b.facets,function(a,b){d.each(a,function(a,e){c.push(d.mixin({facet:{facet:b,value:e,count:a}},d.cloneDeep(l)))})});for(var f=1;f<h.hits.length;++f)c.push(h.hits[f]);i(c,h)})}i([])})}var i=f(a.as._ua);if(i&&i[0]>=3&&i[1]>20&&(b=b||{},b.additionalUA="autocomplete.js "+e),!c.source)return d.error("Missing 'source' key");var j=d.isFunction(c.source)?c.source:function(a){return a[c.source]};if(!c.index)return d.error("Missing 'index' key");var k=c.index;return g=g||{},h}}]);
\ No newline at end of file
diff --git a/deps/search-1.0.0/fuse.min.js b/deps/search-1.0.0/fuse.min.js
new file mode 100644
index 00000000..7def5985
--- /dev/null
+++ b/deps/search-1.0.0/fuse.min.js
@@ -0,0 +1,9 @@
+/**
+ * Fuse.js v6.4.6 - Lightweight fuzzy-search (http://fusejs.io)
+ *
+ * Copyright (c) 2021 Kiro Risk (http://kiro.me)
+ * All Rights Reserved. Apache Software License 2.0
+ *
+ * http://www.apache.org/licenses/LICENSE-2.0
+ */
+var e,t;e=this,t=function(){"use strict";function e(t){return(e="function"==typeof Symbol&&"symbol"==typeof Symbol.iterator?function(e){return typeof e}:function(e){return e&&"function"==typeof Symbol&&e.constructor===Symbol&&e!==Symbol.prototype?"symbol":typeof e})(t)}function t(e,t){if(!(e instanceof t))throw new TypeError("Cannot call a class as a function")}function n(e,t){for(var n=0;n<t.length;n++){var r=t[n];r.enumerable=r.enumerable||!1,r.configurable=!0,"value"in r&&(r.writable=!0),Object.defineProperty(e,r.key,r)}}function r(e,t,r){return t&&n(e.prototype,t),r&&n(e,r),e}function i(e,t,n){return t in e?Object.defineProperty(e,t,{value:n,enumerable:!0,configurable:!0,writable:!0}):e[t]=n,e}function o(e,t){var n=Object.keys(e);if(Object.getOwnPropertySymbols){var r=Object.getOwnPropertySymbols(e);t&&(r=r.filter((function(t){return Object.getOwnPropertyDescriptor(e,t).enumerable}))),n.push.apply(n,r)}return n}function c(e){for(var t=1;t<arguments.length;t++){var n=null!=arguments[t]?arguments[t]:{};t%2?o(Object(n),!0).forEach((function(t){i(e,t,n[t])})):Object.getOwnPropertyDescriptors?Object.defineProperties(e,Object.getOwnPropertyDescriptors(n)):o(Object(n)).forEach((function(t){Object.defineProperty(e,t,Object.getOwnPropertyDescriptor(n,t))}))}return e}function a(e,t){if("function"!=typeof t&&null!==t)throw new TypeError("Super expression must either be null or a function");e.prototype=Object.create(t&&t.prototype,{constructor:{value:e,writable:!0,configurable:!0}}),t&&u(e,t)}function s(e){return(s=Object.setPrototypeOf?Object.getPrototypeOf:function(e){return e.__proto__||Object.getPrototypeOf(e)})(e)}function u(e,t){return(u=Object.setPrototypeOf||function(e,t){return e.__proto__=t,e})(e,t)}function h(e,t){return!t||"object"!=typeof t&&"function"!=typeof t?function(e){if(void 0===e)throw new ReferenceError("this hasn't been initialised - super() hasn't been called");return e}(e):t}function f(e){var t=function(){if("undefined"==typeof 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\ No newline at end of file
diff --git a/deps/search-1.0.0/mark.min.js b/deps/search-1.0.0/mark.min.js
new file mode 100644
index 00000000..1eea0533
--- /dev/null
+++ b/deps/search-1.0.0/mark.min.js
@@ -0,0 +1,7 @@
+/*!***************************************************
+* mark.js v8.11.1
+* https://markjs.io/
+* Copyright (c) 2014–2018, Julian Kühnel
+* Released under the MIT license https://git.io/vwTVl
+*****************************************************/
+!function(e,t){"object"==typeof exports&&"undefined"!=typeof module?module.exports=t():"function"==typeof define&&define.amd?define(t):e.Mark=t()}(this,function(){"use strict";var e="function"==typeof Symbol&&"symbol"==typeof Symbol.iterator?function(e){return typeof e}:function(e){return e&&"function"==typeof Symbol&&e.constructor===Symbol&&e!==Symbol.prototype?"symbol":typeof e},t=function(e,t){if(!(e instanceof t))throw new TypeError("Cannot call a class as a function")},n=function(){function e(e,t){for(var n=0;n<t.length;n++){var r=t[n];r.enumerable=r.enumerable||!1,r.configurable=!0,"value"in r&&(r.writable=!0),Object.defineProperty(e,r.key,r)}}return function(t,n,r){return n&&e(t.prototype,n),r&&e(t,r),t}}(),r=Object.assign||function(e){for(var t=1;t<arguments.length;t++){var n=arguments[t];for(var r in n)Object.prototype.hasOwnProperty.call(n,r)&&(e[r]=n[r])}return e},i=function(){function e(n){var r=!(arguments.length>1&&void 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+<li><a class="dropdown-item" href="articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul>
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+<li class="nav-item"><a class="nav-link" href="news/index.html">Changelog</a></li>
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-<form class="form-inline my-2 my-lg-0" role="search">
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="search.json">
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diff --git a/katex-auto.js b/katex-auto.js
new file mode 100644
index 00000000..20651d9f
--- /dev/null
+++ b/katex-auto.js
@@ -0,0 +1,14 @@
+// https://github.com/jgm/pandoc/blob/29fa97ab96b8e2d62d48326e1b949a71dc41f47a/src/Text/Pandoc/Writers/HTML.hs#L332-L345
+document.addEventListener("DOMContentLoaded", function () {
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diff --git a/lightswitch.js b/lightswitch.js
new file mode 100644
index 00000000..9467125a
--- /dev/null
+++ b/lightswitch.js
@@ -0,0 +1,85 @@
+
+/*!
+ * Color mode toggler for Bootstrap's docs (https://getbootstrap.com/)
+ * Copyright 2011-2023 The Bootstrap Authors
+ * Licensed under the Creative Commons Attribution 3.0 Unported License.
+ * Updates for {pkgdown} by the {bslib} authors, also licensed under CC-BY-3.0.
+ */
+
+const getStoredTheme = () => localStorage.getItem('theme')
+const setStoredTheme = theme => localStorage.setItem('theme', theme)
+
+const getPreferredTheme = () => {
+  const storedTheme = getStoredTheme()
+  if (storedTheme) {
+    return storedTheme
+  }
+
+  return window.matchMedia('(prefers-color-scheme: dark)').matches ? 'dark' : 'light'
+}
+
+const setTheme = theme => {
+  if (theme === 'auto') {
+    document.documentElement.setAttribute('data-bs-theme', (window.matchMedia('(prefers-color-scheme: dark)').matches ? 'dark' : 'light'))
+  } else {
+    document.documentElement.setAttribute('data-bs-theme', theme)
+  }
+}
+
+function bsSetupThemeToggle () {
+  'use strict'
+
+  const showActiveTheme = (theme, focus = false) => {
+    var activeLabel, activeIcon;
+
+    document.querySelectorAll('[data-bs-theme-value]').forEach(element => {
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+      const isActive = buttonTheme == theme
+      
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+      element.setAttribute('aria-pressed', isActive)
+
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+    themeSwitcher.querySelector('span').classList.value = activeIcon;
+
+    if (focus) {
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+  }
+
+  window.matchMedia('(prefers-color-scheme: dark)').addEventListener('change', () => {
+    const storedTheme = getStoredTheme()
+    if (storedTheme !== 'light' && storedTheme !== 'dark') {
+      setTheme(getPreferredTheme())
+    }
+  })
+
+  window.addEventListener('DOMContentLoaded', () => {
+    showActiveTheme(getPreferredTheme())
+
+    document
+      .querySelectorAll('[data-bs-theme-value]')
+      .forEach(toggle => {
+        toggle.addEventListener('click', () => {
+          const theme = toggle.getAttribute('data-bs-theme-value')
+          setTheme(theme)
+          setStoredTheme(theme)
+          showActiveTheme(theme, true)
+        })
+      })
+  })
+}
+
+setTheme(getPreferredTheme());
+bsSetupThemeToggle();
diff --git a/news/index.html b/news/index.html
index 6edcff72..b11d7b20 100644
--- a/news/index.html
+++ b/news/index.html
@@ -1,62 +1,48 @@
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-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Changelog • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Changelog"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Changelog • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Changelog"><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Changelog</h1>
-      <small>Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/NEWS.md" class="external-link"><code>NEWS.md</code></a></small>
+      <small>Source: <a href="https://github.com/kwstat/agridat/blob/main/NEWS.md" class="external-link"><code>NEWS.md</code></a></small>
     </div>
 
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.24" id="agridat-124-unpublished">agridat 1.24 (unpublished)<a class="anchor" aria-label="anchor" href="#agridat-124-unpublished"></a></h2>
 <div class="section level3">
-<h3 id="new-datasets-added-1-24">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-24"></a></h3>
+<h3 id="new-datasets-1-24">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-24"></a></h3>
 <ul><li>haritonenko.sugarbeet.uniformity</li>
 <li>jegorow.oats.uniformity</li>
 <li>jurowski.wheat.uniformity</li>
@@ -66,16 +52,18 @@ <h3 id="new-datasets-added-1-24">New datasets added<a class="anchor" aria-label=
 </ul></div>
 <div class="section level3">
 <h3 id="other-notes-1-24">Other notes<a class="anchor" aria-label="anchor" href="#other-notes-1-24"></a></h3>
-<ul><li><p>baker.strawberry.uniformity: inserted 3 blank columns to more closely align with the experiment layout.</p></li>
+<ul><li><p>baker.strawberry.uniformity: inserted 3 columns into the field to more closely align with the experiment layout.</p></li>
 <li><p>garber.multi.uniformity: The data has been reshaped to tall and additional years added.</p></li>
-<li><p>shafi.tomato.uniformity: Had incorrect yield scale, now divided by 1000.</p></li>
+<li><p>minnesota.barley.yield: Added 10+ more years of data.</p></li>
 <li><p>odland.soyhay.uniformity: Yields have been divided by 10 so that the yield values are now tons instead of 0.1 tons.</p></li>
+<li><p>shafi.tomato.uniformity: Had incorrect yield scale, now divided by 1000.</p></li>
+<li><p>Documentation pages now created via Github Actions. (Issue <a href="https://github.com/kwstat/agridat/issues/12" class="external-link">#12</a>). Thanks to E.Tanaka.</p></li>
 </ul></div>
 </div>
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.23" id="agridat-123-2024-01-30">agridat 1.23 (2024-01-30)<a class="anchor" aria-label="anchor" href="#agridat-123-2024-01-30"></a></h2><p class="text-muted">CRAN release: 2024-02-06</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-23">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-23"></a></h3>
+<h3 id="new-datasets-1-23">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-23"></a></h3>
 </div>
 <div class="section level3">
 <h3 id="other-notes-1-23">Other notes<a class="anchor" aria-label="anchor" href="#other-notes-1-23"></a></h3>
@@ -88,7 +76,7 @@ <h3 id="other-notes-1-23">Other notes<a class="anchor" aria-label="anchor" href=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.22" id="agridat-122-2023-08-24">agridat 1.22 (2023-08-24)<a class="anchor" aria-label="anchor" href="#agridat-122-2023-08-24"></a></h2><p class="text-muted">CRAN release: 2023-08-25</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-22">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-22"></a></h3>
+<h3 id="new-datasets-1-22">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-22"></a></h3>
 <ul><li>bailey.cotton.uniformity</li>
 <li>belamkar.augmented (augmented design at multiple locations)</li>
 <li>chakravertti.factorial (3 block, 3x5x3x3 factorial is a large factorial experiment)</li>
@@ -113,7 +101,7 @@ <h3 id="new-datasets-added-1-22">New datasets added<a class="anchor" aria-label=
 </ul></div>
 <div class="section level3">
 <h3 id="other-notes-1-22">Other notes<a class="anchor" aria-label="anchor" href="#other-notes-1-22"></a></h3>
-<ul><li><p>Switched the package to MIT license.</p></li>
+<ul><li><p>Changed the package to MIT license.</p></li>
 <li><p>Modified factorial-experiment datasets to separate the treatment factors into individual treatment factors.</p></li>
 <li><p>Add docType{package} fix for CRAN.</p></li>
 <li><p>Removed ‘donttest’ for some examples.</p></li>
@@ -122,7 +110,7 @@ <h3 id="other-notes-1-22">Other notes<a class="anchor" aria-label="anchor" href=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.21" id="agridat-121-2022-06-15">agridat 1.21 (2022-06-15)<a class="anchor" aria-label="anchor" href="#agridat-121-2022-06-15"></a></h2><p class="text-muted">CRAN release: 2022-06-15</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-21">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-21"></a></h3>
+<h3 id="new-datasets-1-21">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-21"></a></h3>
 <ul><li>bachmaier.quadratic (confidence intervals for optimum of quadratic)</li>
 <li>ducker.groundnut.uniformity</li>
 <li>kling.augmented (augmented design)</li>
@@ -132,7 +120,7 @@ <h3 id="new-datasets-added-1-21">New datasets added<a class="anchor" aria-label=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.20" id="agridat-120-2021-12-20">agridat 1.20 (2021-12-20)<a class="anchor" aria-label="anchor" href="#agridat-120-2021-12-20"></a></h2><p class="text-muted">CRAN release: 2021-12-20</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-20">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-20"></a></h3>
+<h3 id="new-datasets-1-20">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-20"></a></h3>
 <ul><li>arankacami.groundnut.uniformity</li>
 <li>barrero.maize</li>
 <li>buntaran.wheat</li>
@@ -155,7 +143,7 @@ <h3 id="other-notes-1-20">Other notes<a class="anchor" aria-label="anchor" href=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.18" id="agridat-118-2021-01-12">agridat 1.18 (2021-01-12)<a class="anchor" aria-label="anchor" href="#agridat-118-2021-01-12"></a></h2><p class="text-muted">CRAN release: 2021-01-12</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-18">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-18"></a></h3>
+<h3 id="new-datasets-1-18">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-18"></a></h3>
 <ul><li>damesa.maize</li>
 <li>jayaraman.bamboo</li>
 <li>nair.turmeric.uniformity</li>
@@ -165,7 +153,7 @@ <h3 id="new-datasets-added-1-18">New datasets added<a class="anchor" aria-label=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.17" id="agridat-117-2020-08-03">agridat 1.17 (2020-08-03)<a class="anchor" aria-label="anchor" href="#agridat-117-2020-08-03"></a></h2><p class="text-muted">CRAN release: 2020-08-03</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-17">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-17"></a></h3>
+<h3 id="new-datasets-1-17">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-17"></a></h3>
 <p>alwan.lamb, baker.strawberry.uniformity, besag.checks, bryan.corn.uniformity, davidian.soybean, devries.pine, edwards.oats, george.wheat, hartman.tomato.uniformity, heath.radish.uniformity, johnson.douglasfir, kayad.alfalfa, kerr.sugarcane.uniformity, laycock.tea.uniformity, lehmann.millet.uniformity, linder.wheat, loesell.bean.uniformity, miguez.biomass, obsi.potato.uniformity, paez.coffee.uniformity, pederson.lettuce.repeated, piepho.barley.uniformity, rothamsted.oats, shaw.oats, wyatt.multi.uniformity</p>
 </div>
 <div class="section level3">
@@ -186,7 +174,7 @@ <h2 class="pkg-version" data-toc-text="1.16" id="agridat-116-2018-07-06">agridat
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.15" id="agridat-115-2018-06-28">agridat 1.15 (2018-06-28)<a class="anchor" aria-label="anchor" href="#agridat-115-2018-06-28"></a></h2><p class="text-muted">CRAN release: 2018-06-27</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-15">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-15"></a></h3>
+<h3 id="new-datasets-1-15">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-15"></a></h3>
 <p>ansari.wheat.uniformity, baker.wheat.uniformity, bancroft.peanut.uniformity, bose.multi.uniformity, christidis.cotton.uniformity, dasilva.soybean.uniformity, davies.pasture.uniformity, eden.tea.uniformity, hutchinson.cotton.uniformity, igue.sugarcane.uniformity, kulkarni.sorghum.uniformity, lander.multi.uniformity, lord.rice.uniformity, magistad.pineapple.uniformity, nagai.strawberry.uniformity, narain.sorghum.uniformity, robinson.peanut.uniformity, sayer.sugarcane.uniformity, strickland.apple.uniformity, strickland.grape.uniformity, strickland.peach.uniformity, strickland.tomato.uniformity</p>
 <p>dasilva.maize, mead.turnip</p>
 </div>
@@ -200,21 +188,20 @@ <h3 id="other-notes-1-15">Other notes<a class="anchor" aria-label="anchor" href=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.13" id="agridat-113-2017-11-30">agridat 1.13 (2017-11-30)<a class="anchor" aria-label="anchor" href="#agridat-113-2017-11-30"></a></h2><p class="text-muted">CRAN release: 2017-11-29</p>
 <div class="section level3">
-<h3 id="new-datasets-added-for-uniformity-trials-1-13">New datasets added for uniformity trials<a class="anchor" aria-label="anchor" href="#new-datasets-added-for-uniformity-trials-1-13"></a></h3>
+<h3 id="new-datasets-for-uniformity-trials-1-13">New datasets for uniformity trials<a class="anchor" aria-label="anchor" href="#new-datasets-for-uniformity-trials-1-13"></a></h3>
 <p>bradley.multi.uniformity, christidis.wheat.uniformity, day.wheat.uniformity, draper.safflower.uniformity, holtsmark.timothy.uniformity, iyer.wheat.uniformity, kadam.millet.uniformity, kalamkar.wheat.uniformity, khin.rice.uniformity, kiesselbach.oats.uniformity, kristensen.barley.uniformity, lessman.sorghum.uniformity, love.cotton.uniformity, masood.rice.uniformity, mcclelland.corn.uniformity, montgomery.wheat.uniformity, moore.polebean.uniformity, moore.bushbean.uniformity, moore.sweetcorn.uniformity, moore.carrot.uniformity, moore.springcauliflower.uniformity, moore.fallcauliflower.uniformity, nonnecke.corn.uniformity, nonnecke.peas.uniformity, parker.orange.uniformity, polson.safflower.uniformity, sawyer.multi.uniformity, smith.beans.uniformity, stickler.sorghum.uniformity, wiedemann.safflower.uniformity</p>
 </div>
 <div class="section level3">
-<h3 id="new-datasets-added-for-stability-1-13">New datasets added for stability<a class="anchor" aria-label="anchor" href="#new-datasets-added-for-stability-1-13"></a></h3>
+<h3 id="new-datasets-for-stability-1-13">New datasets for stability<a class="anchor" aria-label="anchor" href="#new-datasets-for-stability-1-13"></a></h3>
 <p>fisher.barley, lu.stability, tai.potato</p>
 </div>
 <div class="section level3">
-<h3 id="new-datasets-added-1-13">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-13"></a></h3>
+<h3 id="new-datasets-1-13">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-13"></a></h3>
 <p>acorsi.grayleafspot, becker.chicken, chinloy.fractionalfactorial, cramer.cucumber, crampton.pig, battese.survey, christidis.competition, depalluel.sheep. eden.nonnormal, gartner.corn, giles.wheat, gomez.heteroskedastic, gomez.nonnormal1, gomez.nonnormal2, gomez.nonnormal3, gomez.wetdry, goulden.eggs, goulden.splitsplit, gregory.cotton, hanover.whitepine, harvey.lsmeans, harville.lamb, huehn.wheat, kenward.cattle, kreusler.maize, lehner.soybeanmold, lillemo.wheat, lin.superiority, lin.unbalanced, little.splitblock, mead.lamb, omer.sorghum, onofri.winterwheat, reid.grasses, silva.cotton, urquhart.feedlot, usgs.herbicides, vaneeuwijk.fusarium, vaneeuwijk.nematodes, vaneeuwijk.drymatter, wheatley.carrot</p>
 </div>
 <div class="section level3">
 <h3 id="other-notes-1-13">Other notes<a class="anchor" aria-label="anchor" href="#other-notes-1-13"></a></h3>
 <ul><li><p>The following data objects have been changed from lists of 2 matrices into tidy dataframes: aastveit.barley, box.cork, ortiz.tomato, talbot.potato, vargas.txe, vargas.wheat1, vargas.wheat2</p></li>
-<li><p>Checked aspect ratio of field plot heatmaps where possible.</p></li>
 <li><p><code>devtools::run_examples()</code> now works even without suggested packages installed.</p></li>
 <li><p>Changed extensions in inst/files from .bug to .jag .</p></li>
 <li><p>Changed all hyperlinks to plain text (for faster checking, avoids re-direct errors).</p></li>
@@ -225,7 +212,7 @@ <h3 id="other-notes-1-13">Other notes<a class="anchor" aria-label="anchor" href=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.12" id="agridat-112-2015-06-29">agridat 1.12 (2015-06-29)<a class="anchor" aria-label="anchor" href="#agridat-112-2015-06-29"></a></h2><p class="text-muted">CRAN release: 2015-06-29</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-12">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-12"></a></h3>
+<h3 id="new-datasets-1-12">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-12"></a></h3>
 <ul><li>cochran.beets</li>
 <li>cochran.lattice</li>
 <li>jansen.apple</li>
@@ -235,7 +222,7 @@ <h3 id="new-datasets-added-1-12">New datasets added<a class="anchor" aria-label=
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.11" id="agridat-111-2015-03-03">agridat 1.11 (2015-03-03)<a class="anchor" aria-label="anchor" href="#agridat-111-2015-03-03"></a></h2><p class="text-muted">CRAN release: 2015-03-03</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-11">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-11"></a></h3>
+<h3 id="new-datasets-1-11">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-11"></a></h3>
 <ul><li>besag.beans</li>
 <li>besag.triticale</li>
 <li>burgeuno.alpha</li>
@@ -251,7 +238,7 @@ <h3 id="other-1-11">Other<a class="anchor" aria-label="anchor" href="#other-1-11
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.10" id="agridat-110-2014-11-26">agridat 1.10 (2014-11-26)<a class="anchor" aria-label="anchor" href="#agridat-110-2014-11-26"></a></h2><p class="text-muted">CRAN release: 2014-11-26</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-10">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-10"></a></h3>
+<h3 id="new-datasets-1-10">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-10"></a></h3>
 <p>beaven.barley, perry.springwheat, ridout.appleshoots</p>
 </div>
 <div class="section level3">
@@ -262,7 +249,7 @@ <h3 id="other-1-10">Other<a class="anchor" aria-label="anchor" href="#other-1-10
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.9" id="agridat-19-2014-07-02">agridat 1.9 (2014-07-02)<a class="anchor" aria-label="anchor" href="#agridat-19-2014-07-02"></a></h2><p class="text-muted">CRAN release: 2014-07-02</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-9">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-9"></a></h3>
+<h3 id="new-datasets-1-9">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-9"></a></h3>
 <p>beall.webworms, besag.endive, brandt.switchback, butron.maize, carlson.germination, cochran.factorial, connolly.potato, cornelius.maize, cullis.earlygen, fisher.latin, foulley.calving, fox.wheat, gomez.splitplot.subsample, goulden.latin, gumpertz.pepper, harrison.priors, hazell.vegetables, heady.fertilizer, holland.arthropods, hunter.corn, jansen.strawberry, kalamkar.potato.uniformity, kang.maize, kang.peanut, karcher.turfgrass, keen.potatodamage, lasrosas.corn, lee.potatoblight, lonnquist.maize, lucas.switchback, maindonald.barley, mead.cauliflower, mercer.mangold.uniformity, patterson.switchback, piepho.cocksfoot, sinclair.clover, snijders.fusarium, stirret.borers, theobald.barley, turner.herbicide, vargas.txe, vold.longterm, wallace.iowaland, walsh.cottonprice, wassom.brome.uniformity, welch.bermudagrass, weiss.incblock, weiss.lattice, yang.barley</p>
 </div>
 <div class="section level3">
@@ -274,7 +261,7 @@ <h3 id="other-1-9">Other<a class="anchor" aria-label="anchor" href="#other-1-9">
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.8" id="agridat-18-2013-09-23">agridat 1.8 (2013-09-23)<a class="anchor" aria-label="anchor" href="#agridat-18-2013-09-23"></a></h2><p class="text-muted">CRAN release: 2013-09-23</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-8">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-8"></a></h3>
+<h3 id="new-datasets-1-8">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-8"></a></h3>
 <ul><li>brandle.rape</li>
 <li>salmon.bunt</li>
 </ul></div>
@@ -282,7 +269,7 @@ <h3 id="new-datasets-added-1-8">New datasets added<a class="anchor" aria-label="
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.7" id="agridat-17-2013-09-06">agridat 1.7 (2013-09-06)<a class="anchor" aria-label="anchor" href="#agridat-17-2013-09-06"></a></h2><p class="text-muted">CRAN release: 2013-09-06</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-7">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-7"></a></h3>
+<h3 id="new-datasets-1-7">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-7"></a></h3>
 <ul><li>baker.barley.uniformity</li>
 <li>bliss.borers</li>
 <li>bond.diallel</li>
@@ -296,35 +283,35 @@ <h3 id="new-datasets-added-1-7">New datasets added<a class="anchor" aria-label="
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.6" id="agridat-16-2013-06-04">agridat 1.6 (2013-06-04)<a class="anchor" aria-label="anchor" href="#agridat-16-2013-06-04"></a></h2><p class="text-muted">CRAN release: 2013-06-04</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-6">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-6"></a></h3>
+<h3 id="new-datasets-1-6">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-6"></a></h3>
 <p>crossa.wheat, garber.multi.uniformity, gomez.nitrogen, harris.multi.uniformity, hughes.grapes, li.millet.uniformity, odland.soybean.uniformity, odland.soyhay.uniformity, ratkowsky.onions, stephens.sorghum.uniformity</p>
 </div>
 </div>
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.5" id="agridat-15-2013-04-26">agridat 1.5 (2013-04-26)<a class="anchor" aria-label="anchor" href="#agridat-15-2013-04-26"></a></h2><p class="text-muted">CRAN release: 2013-04-26</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-5">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-5"></a></h3>
+<h3 id="new-datasets-1-5">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-5"></a></h3>
 <p>adugna.sorghum, ars.earlywhitecorn96, besag.bayesian, box.cork, broadbalk.wheat, byers.apple, caribbean.maize, carmer.density, cate.potassium, cleveland.soil, cochran.eelworms, cochran.wireworms, fan.stability, gomez.seedrate, gotway.hessianfly, goulden.barley.uniformity, henderson.milkfat, hernandez.nitrogen, hessling.argentina, immer.sugarbeet.uniformity, ivins.herbs, jenkyn.mildew, johnson.blight, lambert.soiltemp, lavoranti.eucalyptus, lyon.potato.uniformity, lyons.wheat, mead.cowpeamaize, mead.germination, minnesota.barley.weather, minnesota.barley.yield, nebraska.farmincome, nass.barley, nass.corn, nass.cotton, nass.hay, nass.rice, nass.sorghum, nass.soybean, nass.wheat, ortiz.tomato, pacheco.soybean, senshu.rice, snedecor.asparagus, streibig.competition, zuidhof.broiler</p>
 </div>
 </div>
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.4" id="agridat-14-2012-03-14">agridat 1.4 (2012-03-14)<a class="anchor" aria-label="anchor" href="#agridat-14-2012-03-14"></a></h2><p class="text-muted">CRAN release: 2012-03-14</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-4">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-4"></a></h3>
+<h3 id="new-datasets-1-4">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-4"></a></h3>
 <p>archbold.apple, blackman.wheat, cochran.crd, cochran.latin, darwin.maize, denis.ryegrass, digby.jointregression, engelstad.nitro, federer.diagcheck, gilmour.slatehall, john.alpha, ilra.sheep, kempton.slatehall, ryder.groundnut, vsn.lupin3</p>
 </div>
 </div>
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.3" id="agridat-13-2011-10-20">agridat 1.3 (2011-10-20)<a class="anchor" aria-label="anchor" href="#agridat-13-2011-10-20"></a></h2><p class="text-muted">CRAN release: 2011-10-20</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-3">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-3"></a></h3>
+<h3 id="new-datasets-1-3">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-3"></a></h3>
 <p>bridges.cucumber, cox.stripsplit, diggle.cow, eden.potato, gauch.soy, graybill.heteroskedastic, hildebrand.systems, hanks.sprinkler, mcconway.turnip, pearl.kernels, williams.barley.uniformity, williams.cotton.uniformity</p>
 </div>
 </div>
     <div class="section level2">
 <h2 class="pkg-version" data-toc-text="1.2" id="agridat-12-2011-06-30">agridat 1.2 (2011-06-30)<a class="anchor" aria-label="anchor" href="#agridat-12-2011-06-30"></a></h2><p class="text-muted">CRAN release: 2011-06-30</p>
 <div class="section level3">
-<h3 id="new-datasets-added-1-2">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-2"></a></h3>
+<h3 id="new-datasets-1-2">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-2"></a></h3>
 <p>aastveit.barley, gathmann.bt, kempton.competition, wedderburn.barley</p>
 </div>
 </div>
@@ -332,7 +319,7 @@ <h3 id="new-datasets-added-1-2">New datasets added<a class="anchor" aria-label="
 <h2 class="pkg-version" data-toc-text="1.0" id="agridat-10-2011-04-27">agridat 1.0 (2011-04-27)<a class="anchor" aria-label="anchor" href="#agridat-10-2011-04-27"></a></h2>
 <ul><li>First release to CRAN</li>
 </ul><div class="section level3">
-<h3 id="new-datasets-added-1-0">New datasets added<a class="anchor" aria-label="anchor" href="#new-datasets-added-1-0"></a></h3>
+<h3 id="new-datasets-1-0">New datasets<a class="anchor" aria-label="anchor" href="#new-datasets-1-0"></a></h3>
 <p>allcroft.lodging, australia.soybean, batchelor.apple.uniformity, batchelor.lemon.uniformity, batchelor.navel1.uniformity, batchelor.navel2.uniformity, batchelor.valencia.uniformity, batchelor.walnut.uniformity, besag.elbatan, besag.met, cochran.bib, corsten.interaction, crowder.germination, denis.missing, durban.competition, durban.rowcol, durban.splitplot, federer.tobacco, gilmour.serpentine, gomez.fractionalfactorial, gomez.groupsplit, gomez.multilocsplitplot, gomez.splitsplit, gomez.stripplot, gomez.stripsplitplot, gomez.rice.uniformity, hughes.grapes, kempton.rowcol, kempton.barley.uniformity, mead.strawberry, mercer.wheat.uniformity, rothamsted.brussels, shafii.rapeseed, smith.uniformity3, stroup.nin, stroup.splitplot, student.barley, talbot.potato, theobald.covariate, thompson.cornsoy, vargas.wheat1, vargas.wheat2, verbyla.lupin, williams.trees, wiebe.wheat.uniformity, yan.winterwheat, yates.missing, yates.oats</p>
 </div>
 </div>
@@ -340,7 +327,7 @@ <h3 id="new-datasets-added-1-0">New datasets added<a class="anchor" aria-label="
 <h2 class="pkg-version" data-toc-text="0.0" id="agridat-00-2010-10-01">agridat 0.0 (2010-10-01)<a class="anchor" aria-label="anchor" href="#agridat-00-2010-10-01"></a></h2>
 <ul><li>Development begins</li>
 </ul></div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -349,14 +336,14 @@ <h2 class="pkg-version" data-toc-text="0.0" id="agridat-00-2010-10-01">agridat 0
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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+
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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     <a class="navbar-brand me-2" href="index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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       <img src="logo.png" class="logo" alt=""><h1>License note</h1>
-      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/notes_agridat.md" class="external-link"><code>notes_agridat.md</code></a></small>
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/notes_agridat.md" class="external-link"><code>notes_agridat.md</code></a></small>
     </div>
 
 
@@ -110,7 +96,6 @@ <h3 id="folder-9-demandt-1931">Folder 9 Demandt 1931<a class="anchor" aria-label
 <div class="section level2">
 <h2 id="to-do">To do<a class="anchor" aria-label="anchor" href="#to-do"></a></h2>
 <ul><li>change theobald.covariate from JAGS to brms?</li>
-<li>brms examples for crowder.seeds</li>
 <li>Figure out best way to use jags</li>
 <li>JAGS code for edwards.oats</li>
 <li>JAGS code for lee.potatoblight</li>
@@ -187,18 +172,18 @@ <h2 id="indian-journal-of-agricultural-science">Indian Journal of Agricultural S
 Vol 2.
 Vol 3. https://archive.org/details/in.ernet.dli.2015.271738/page/n653/mode/2up
   544 5 varieties, 2 blocks, 4 reps/block
-Vol 4. 
+Vol 4.
 Vol 5.
   579. agridat::bose.multi.uniformity
-Vol 6. 
+Vol 6.
 https://archive.org/details/in.ernet.dli.2015.271737
   34. 4-way factorial (3 gen, 5 date, 3 spacing, 3 pop) non-contiguous sub-plots. agridat::chakravertti.factorial
   460. agridat::kulkarni.sorghum.uniformity
   917. agridat::sayer.sugarcane.uniformity
 Vol 9.
 Vol 10.
-Vol 11. 
-Vol 12. 
+Vol 11.
+Vol 12.
   240. Wheat uniformity trial. agridat::iyer.wheat.uniformity
 Vol 14.
 Vol 16.
@@ -257,7 +242,7 @@ <h2 id="jack-weiss">Jack Weiss<a class="anchor" aria-label="anchor" href="#jack-
 <div class="section level1">
 <h1 id="journals--proceedings">Journals / Proceedings<a class="anchor" aria-label="anchor" href="#journals--proceedings"></a></h1>
 <div class="section level2">
-<h2 id="applied-statistics-in-agriculture">Applied Statistics in Agriculture<a class="anchor" aria-label="anchor" href="#applied-statistics-in-agriculture"></a></h2>
+<h2 id="applied-statistics-in-agriculture-conference">Applied Statistics in Agriculture Conference<a class="anchor" aria-label="anchor" href="#applied-statistics-in-agriculture-conference"></a></h2>
 <p><a href="http://newprairiepress.org/agstatconference/" class="external-link uri">http://newprairiepress.org/agstatconference/</a> 1989-2014</p>
 </div>
 <div class="section level2">
@@ -272,14 +257,10 @@ <h2 id="journal-of-agricultural-science">Journal of Agricultural Science<a class
 <h2 id="experimental-agriculture">Experimental Agriculture<a class="anchor" aria-label="anchor" href="#experimental-agriculture"></a></h2>
 <p><a href="https://www.cambridge.org/core/journals/experimental-agriculture" class="external-link uri">https://www.cambridge.org/core/journals/experimental-agriculture</a> 1965-2016</p>
 </div>
-<div class="section level2">
-<h2 id="sas-global-forum">SAS Global Forum<a class="anchor" aria-label="anchor" href="#sas-global-forum"></a></h2>
-<p><a href="http://support.sas.com/events/sasglobalforum/previous/online.html" class="external-link uri">http://support.sas.com/events/sasglobalforum/previous/online.html</a> 22-31, 2007-2013</p>
-</div>
 </div>
 
 
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -288,14 +269,14 @@ <h2 id="sas-global-forum">SAS Global Forum<a class="anchor" aria-label="anchor"
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/pkgdown.js b/pkgdown.js
index 9bd6621e..9757bf9e 100644
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+++ b/pkgdown.js
@@ -152,5 +152,3 @@ async function searchFuse(query, callback) {
   });
   });
 })(window.jQuery || window.$)
-
-
diff --git a/pkgdown.yml b/pkgdown.yml
index 380f22ae..ff29b632 100644
--- a/pkgdown.yml
+++ b/pkgdown.yml
@@ -1,10 +1,10 @@
 pandoc: 3.1.11
-pkgdown: 2.0.9
+pkgdown: 2.1.0
 pkgdown_sha: ~
 articles:
   agridat_data: agridat_data.html
   agridat_graphical_gems: agridat_graphical_gems.html
   agridat_intro: agridat_intro.html
+  agridat_mixed_model_example: agridat_mixed_model_example.html
   agridat_uniformity_data: agridat_uniformity_data.html
-last_built: 2024-07-01T20:17Z
-
+last_built: 2024-09-13T21:40Z
diff --git a/reference/aastveit.barley.html b/reference/aastveit.barley.html
index 7b87f334..ed456da0 100644
--- a/reference/aastveit.barley.html
+++ b/reference/aastveit.barley.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Average height for 15 genotypes of barley in each of 9 years.
-  Also 19 covariates in each of the 9 years."><title>Barley heights and environmental covariates in Norway — aastveit.barley • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Barley heights and environmental covariates in Norway — aastveit.barley"><meta property="og:description" content="Average height for 15 genotypes of barley in each of 9 years.
-  Also 19 covariates in each of the 9 years."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Barley heights and environmental covariates in Norway — aastveit.barley • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Barley heights and environmental covariates in Norway — aastveit.barley"><meta name="description" content="Average height for 15 genotypes of barley in each of 9 years.
+  Also 19 covariates in each of the 9 years."><meta property="og:description" content="Average height for 15 genotypes of barley in each of 9 years.
+  Also 19 covariates in each of the 9 years."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Barley heights and environmental covariates in Norway</h1>
-      
+
       <div class="d-none name"><code>aastveit.barley.Rd</code></div>
     </div>
 
@@ -69,7 +55,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p>The 'aastveit.barley.covs' dataframe has 9 observations on the following 20 variables.</p><dl><dt><code>year</code></dt>
 <dd><p>year</p></dd>
@@ -131,7 +117,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>T6</code></dt>
 <dd><p>avg temp (deg Celsius) in period 6</p></dd>
 
-  
+
 </dl><p>The 'aastveit.barley.height' dataframe has 135 observations on the
   following 3 variables.</p><dl><dt><code>year</code></dt>
 <dd><p>year, 9 years spanning from 1974 to 1982</p></dd>
@@ -142,11 +128,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>height (cm)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiments were conducted at As, Norway.</p>
 <p>The <code>height</code> dataframe contains average plant height (cm) of 15 varieties
@@ -160,7 +146,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Aastveit, A. H. and Martens, H. (1986).
   ANOVA interactions interpreted by partial least squares regression.
-  Biometrics, 42, 829--844.
+  Biometrics, 42, 829–844.
   https://doi.org/10.2307/2530697</p>
     </div>
     <div class="section level2">
@@ -173,7 +159,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="st">"aastveit.barley.covs"</span><span class="op">)</span></span></span>
@@ -239,10 +225,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                           <span class="fu"><a href="https://rdrr.io/r/base/outer.html" class="external-link">outer</a></span><span class="op">(</span><span class="va">gamma</span><span class="op">[</span>, <span class="fl">2</span><span class="op">]</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">1.96</span>, <span class="fl">1.96</span><span class="op">)</span><span class="op">)</span><span class="op">)</span> ,<span class="fl">3</span><span class="op">)</span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">delta</span><span class="op">[</span>,<span class="fl">1</span><span class="op">]</span>, <span class="va">delta</span><span class="op">[</span>, <span class="fl">1</span><span class="op">]</span> <span class="op">+</span></span></span>
 <span class="r-in"><span>                           <span class="fu"><a href="https://rdrr.io/r/base/outer.html" class="external-link">outer</a></span><span class="op">(</span><span class="va">delta</span><span class="op">[</span>, <span class="fl">2</span><span class="op">]</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">1.96</span>, <span class="fl">1.96</span><span class="op">)</span><span class="op">)</span><span class="op">)</span> ,<span class="fl">3</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -251,14 +237,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/acorsi.grayleafspot.html b/reference/acorsi.grayleafspot.html
index 786e3ea4..f6844cba 100644
--- a/reference/acorsi.grayleafspot.html
+++ b/reference/acorsi.grayleafspot.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial evaluating 36 maize genotypes in 9 locations"><title>Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot"><meta property="og:description" content="Multi-environment trial evaluating 36 maize genotypes in 9 locations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot"><meta name="description" content="Multi-environment trial evaluating 36 maize genotypes in 9 locations"><meta property="og:description" content="Multi-environment trial evaluating 36 maize genotypes in 9 locations"><meta property="og:image" content="/logo.png"></head><body>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial evaluating 36 maize genotypes in 9 locations</h1>
-      
+
       <div class="d-none name"><code>acorsi.grayleafspot.Rd</code></div>
     </div>
 
@@ -77,14 +63,14 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>grey leaf spot severity</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Experiments conducted in 9 environments in Brazil in 2010-11.  Each
-  location had an RCB with 2 reps.</p>  
+  location had an RCB with 2 reps.</p>
 <p>The response variable is the percentage of leaf area affected by gray
-  leaf spot within each experimental unit (plot).</p>  
+  leaf spot within each experimental unit (plot).</p>
 <p>Acorsi et al. use this data to illustrate the fitting of a generalized
   AMMI model with non-normal data.</p>
     </div>
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">acorsi.grayleafspot</span><span class="op">)</span></span></span>
@@ -180,11 +166,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">gmat</span>, <span class="va">emat</span>, xlim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">2.2</span>, <span class="fl">2.2</span><span class="op">)</span>, ylim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">2.2</span>, <span class="fl">2.2</span><span class="op">)</span>, expand<span class="op">=</span><span class="fl">2</span>, cex<span class="op">=</span><span class="fl">0.5</span>,</span></span>
 <span class="r-in"><span>         xlab<span class="op">=</span><span class="st">"Axis 1"</span>, ylab<span class="op">=</span><span class="st">"Axis 2"</span>,</span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"acorsi.grayleafspot - GAMMI biplot"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -193,14 +179,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of sorghum at 3 locations across 5 years</h1>
-      
+
       <div class="d-none name"><code>adugna.sorghum.Rd</code></div>
     </div>
 
@@ -79,15 +65,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>loc</code></dt>
 <dd><p>location, 3 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Sorghum yields at 3 locations across 5 years.
   The trials were carried out at three locations in dry, hot lowlands of
-  Ethiopia:</p>  
-<p>Melkassa (39 deg 21 min E, 8 deg 24 min N)</p>  
-<p>Mieso (39 deg 22 min E, 8 deg 41 min N)</p>  
+  Ethiopia:</p>
+<p>Melkassa (39 deg 21 min E, 8 deg 24 min N)</p>
+<p>Mieso (39 deg 22 min E, 8 deg 41 min N)</p>
 <p>Kobo (39 deg 37 min E, 12 deg 09 min N)</p>
 <p>Trial 1 was 14 hybrids and one open-pollinated variety.</p>
 <p>Trial 2 was 12 experimental lines.</p>
@@ -98,13 +84,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Asfaw Adugna (2008).
   Assessment of yield stability in sorghum using
   univariate and multivariate statistical approaches.
-  Hereditas, 145, 28--37.  
+  Hereditas, 145, 28–37.
   https://doi.org/10.1111/j.0018-0661.2008.2023.x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">adugna.sorghum</span><span class="op">)</span></span></span>
@@ -134,11 +120,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">w</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/colSums.html" class="external-link">rowSums</a></span><span class="op">(</span><span class="va">w</span><span class="op">^</span><span class="fl">2</span>, na.rm<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">sig2</span> <span class="op">&lt;-</span> <span class="va">k</span><span class="op">*</span><span class="va">w</span><span class="op">/</span><span class="op">(</span><span class="op">(</span><span class="va">k</span><span class="op">-</span><span class="fl">2</span><span class="op">)</span><span class="op">*</span><span class="op">(</span><span class="va">n</span><span class="op">-</span><span class="fl">1</span><span class="op">)</span><span class="op">)</span> <span class="op">-</span> <span class="fu"><a href="https://rdrr.io/r/base/sum.html" class="external-link">sum</a></span><span class="op">(</span><span class="va">w</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="op">(</span><span class="va">k</span><span class="op">-</span><span class="fl">1</span><span class="op">)</span><span class="op">*</span><span class="op">(</span><span class="va">k</span><span class="op">-</span><span class="fl">2</span><span class="op">)</span><span class="op">*</span><span class="op">(</span><span class="va">n</span><span class="op">-</span><span class="fl">1</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="va">sig2</span><span class="op">/</span><span class="fl">10000</span>,<span class="fl">1</span><span class="op">)</span> <span class="co"># Genotypes in T1 are divided by 10000</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -147,14 +133,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/agridat.html b/reference/agridat.html
index f9328509..4c8e3a96 100644
--- a/reference/agridat.html
+++ b/reference/agridat.html
@@ -1,58 +1,44 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Datasets from agricultural experiments</h1>
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       <div class="d-none name"><code>agridat.Rd</code></div>
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@@ -64,7 +50,7 @@
 
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>If you use these data, please cite both the agridat package and the
   original source of the data.</p>
@@ -82,7 +68,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p><b>Trees</b></p>
 <table class="table table"><tr><td>name</td><td>gen</td><td>loc</td><td>reps</td><td>years</td><td>trt</td><td>other</td><td>model</td></tr><tr><td><a href="box.cork.html">box.cork</a></td><td></td><td></td><td></td><td></td><td></td><td>repeated</td><td>radial, asreml</td></tr><tr><td><a href="devries.pine.html">devries.pine</a></td><td></td><td></td><td>4</td><td></td><td>3,3</td><td>xy,graeco</td><td>aov</td></tr><tr><td><a href="harris.wateruse.html">harris.wateruse</a></td><td>2</td><td></td><td></td><td></td><td>2</td><td>repeated</td><td>asreml,lme</td></tr><tr><td><a href="hanover.whitepine.html">hanover.whitepine</a></td><td>7*4</td><td></td><td>4</td><td></td><td></td><td>heritability</td><td>lmer</td></tr><tr><td><a href="johnson.douglasfir.html">johnson.douglasfir</a></td><td></td><td></td><td></td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="lavoranti.eucalyptus.html">lavoranti.eucalyptus</a></td><td>70</td><td>7</td><td></td><td></td><td></td><td></td><td>svd</td></tr><tr><td><a href="pearce.apple.html">pearce.apple</a></td><td></td><td></td><td>4</td><td></td><td>6</td><td>cov</td><td>lm,lmer</td></tr><tr><td><a href="williams.trees.html">williams.trees</a></td><td>37</td><td>6</td><td></td><td></td><td>2</td><td></td><td></td></tr></table><p><!-- % ------------------------------------------------------------------------------ --></p>
 <p><b>Field and horticulture crops</b></p>
-<table class="table table"><tr><td>name</td><td>gen</td><td>loc</td><td>reps</td><td>years</td><td>trt</td><td>other</td><td>model</td></tr><tr><td><a href="acorsi.grayleafspot.html">acorsi.grayleafspot</a></td><td>36</td><td>9</td><td>2</td><td>5</td><td></td><td>nonnormal</td><td>gnm,ammi</td></tr><tr><td><a href="adugna.sorghum.html">adugna.sorghum</a></td><td>28</td><td>13</td><td></td><td>5</td><td></td><td></td><td></td></tr><tr><td><a href="aastveit.barley.html">aastveit.barley</a></td><td>15</td><td></td><td></td><td>9</td><td></td><td>yr*gen~yr*trt</td><td>pls</td></tr><tr><td><a href="allcroft.lodging.html">allcroft.lodging</a></td><td>32</td><td>7</td><td></td><td></td><td></td><td>percent</td><td>tobit</td></tr><tr><td><a href="archbold.apple.html">archbold.apple</a></td><td>2</td><td></td><td>5</td><td></td><td>24</td><td>split-split</td><td>lmer</td></tr><tr><td><a href="ars.earlywhitecorn96.html">ars.earlywhitecorn96</a></td><td>60</td><td>9</td><td></td><td></td><td></td><td>6 traits</td><td>dotplot</td></tr><tr><td><a href="australia.soybean.html">australia.soybean</a></td><td>58</td><td>4</td><td></td><td>2</td><td></td><td>4-way, 6 traits</td><td>biplot</td></tr><tr><td><a href="bachmaier.nitrogen.html">bachmaier.nitrogen</a></td><td></td><td></td><td>4</td><td></td><td>2,11</td><td></td><td>quadratic lm</td></tr><tr><td><a href="barrero.maize.html">barrero.maize</a></td><td>847</td><td>16</td><td>4</td><td>11</td><td>6</td><td></td><td>asreml</td></tr><tr><td><a href="battese.survey.html">battese.survey</a></td><td></td><td>12</td><td>1-5</td><td></td><td>2</td><td></td><td>lmer</td></tr><tr><td><a href="beall.webworms.html">beall.webworms</a></td><td></td><td></td><td>15</td><td></td><td>2,2</td><td>xy, split-block</td><td>glm poisson,nb</td></tr><tr><td><a href="beaven.barley.html">beaven.barley</a></td><td>8</td><td></td><td>20</td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="belamkar.augmented.html">belamkar.augmented</a></td><td>273</td><td>8</td><td></td><td></td><td></td><td>xy, incblock</td><td>asreml</td></tr><tr><td><a href="besag.bayesian.html">besag.bayesian</a></td><td>75</td><td></td><td>3</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="besag.beans.html">besag.beans</a></td><td>6</td><td></td><td>4*6</td><td></td><td></td><td>xy</td><td>lm,competition</td></tr><tr><td><a href="besag.checks.html">besag.checks</a></td><td>2</td><td></td><td></td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="besag.elbatan.html">besag.elbatan</a></td><td>50</td><td></td><td>3</td><td></td><td></td><td>xy</td><td>lm, gam</td></tr><tr><td><a href="besag.endive.html">besag.endive</a></td><td></td><td></td><td></td><td></td><td></td><td>xy,binary</td><td>autologistic</td></tr><tr><td><a href="besag.met.html">besag.met</a></td><td>64</td><td>6</td><td>3</td><td></td><td></td><td>xy, incblock</td><td>asreml, lme</td></tr><tr><td><a href="besag.triticale.html">besag.triticale</a></td><td>3</td><td></td><td></td><td></td><td>2,2,3</td><td>xy</td><td>lm, asreml</td></tr><tr><td><a href="bliss.borers.html">bliss.borers</a></td><td></td><td></td><td></td><td></td><td>4</td><td></td><td>glm</td></tr><tr><td><a href="blackman.wheat.html">blackman.wheat</a></td><td>12</td><td>7</td><td></td><td></td><td>2</td><td></td><td>biplot</td></tr><tr><td><a href="bond.diallel.html">bond.diallel</a></td><td>6*6</td><td></td><td></td><td></td><td>9</td><td>diallel</td><td></td></tr><tr><td><a href="bridges.cucumber.html">bridges.cucumber</a></td><td>4</td><td>2</td><td>4</td><td></td><td></td><td>xy, latin, hetero</td><td>asreml</td></tr><tr><td><a href="brandle.rape.html">brandle.rape</a></td><td>5</td><td>9</td><td></td><td>3</td><td></td><td></td><td>lmer</td></tr><tr><td><a href="buntaran.wheat.html">buntaran.wheat</a></td><td>30</td><td>18</td><td>2</td><td></td><td></td><td>alpha</td><td>asreml</td></tr><tr><td><a href="burgueno.alpha.html">burgueno.alpha</a></td><td>15</td><td></td><td>3</td><td></td><td></td><td>xy, alpha</td><td>asreml,lmer</td></tr><tr><td><a href="burgueno.rowcol.html">burgueno.rowcol</a></td><td>64</td><td></td><td>2</td><td></td><td></td><td>xy, row-col</td><td>asreml,lmer</td></tr><tr><td><a href="burgueno.unreplicated.html">burgueno.unreplicated</a></td><td>280</td><td></td><td></td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="butron.maize.html">butron.maize</a></td><td>49</td><td>3</td><td></td><td>2</td><td></td><td>diallel,pedigree</td><td>biplot,asreml</td></tr><tr><td><a href="caribbean.maize.html">caribbean.maize</a></td><td></td><td>17</td><td>4</td><td></td><td>3</td><td></td><td></td></tr><tr><td><a href="carmer.density.html">carmer.density</a></td><td>8</td><td></td><td></td><td></td><td>4</td><td></td><td>nls,nlme</td></tr><tr><td><a href="carlson.germination.html">carlson.germination</a></td><td>15</td><td></td><td></td><td></td><td>8</td><td></td><td>glm</td></tr><tr><td><a href="chakravertti.factorial.html">chakravertti.factorial</a></td><td>3</td><td></td><td>3</td><td></td><td>3,5,3,3</td><td>factorial</td><td>aov</td></tr><tr><td><a href="chinloy.fractionalfactorial.html">chinloy.fractionalfactorial</a></td><td></td><td></td><td>9</td><td></td><td>1/3 3^5 = 3,3,3,3</td><td>xy,factorial</td><td>aov</td></tr><tr><td><a href="christidis.competition.html">christidis.competition</a></td><td>9</td><td></td><td>5</td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="cochran.beets.html">cochran.beets</a></td><td></td><td></td><td>6</td><td></td><td>7</td><td></td><td></td></tr><tr><td><a href="cochran.bib.html">cochran.bib</a></td><td>13</td><td>13</td><td></td><td></td><td></td><td>bib</td><td>aov, lme</td></tr><tr><td><a href="cochran.crd.html">cochran.crd</a></td><td></td><td></td><td></td><td></td><td>7</td><td>xy, crd</td><td>aov</td></tr><tr><td><a href="cochran.factorial.html">cochran.factorial</a></td><td></td><td></td><td>2</td><td></td><td>2,2,2,2 = 2^4</td><td>factorial</td><td>aov</td></tr><tr><td><a href="cochran.latin.html">cochran.latin</a></td><td></td><td></td><td>6</td><td></td><td>6</td><td>xy, latin</td><td>aov</td></tr><tr><td><a href="cochran.lattice.html">cochran.lattice</a></td><td></td><td></td><td>5</td><td></td><td>16</td><td>xy, latin</td><td>lmer</td></tr><tr><td><a href="cochran.wireworms.html">cochran.wireworms</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>xy, latin</td><td>glm</td></tr><tr><td><a href="cochran.eelworms.html">cochran.eelworms</a></td><td></td><td></td><td>4</td><td></td><td>5</td><td>xy</td><td>aov</td></tr><tr><td><a href="connolly.potato.html">connolly.potato</a></td><td>20</td><td></td><td>4</td><td></td><td></td><td>xy, competition</td><td>lm</td></tr><tr><td><a href="cornelius.maize.html">cornelius.maize</a></td><td>9</td><td>20</td><td></td><td></td><td></td><td></td><td>svd</td></tr><tr><td><a href="corsten.interaction.html">corsten.interaction</a></td><td>20</td><td>7</td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><a href="cramer.cucumber.html">cramer.cucumber</a></td><td></td><td></td><td>8</td><td></td><td></td><td></td><td>pathcoef</td></tr><tr><td><a href="crossa.wheat.html">crossa.wheat</a></td><td>18</td><td>25</td><td></td><td></td><td></td><td></td><td>ammi</td></tr><tr><td><a href="crowder.seeds.html">crowder.seeds</a></td><td>2</td><td></td><td>21</td><td></td><td>2</td><td></td><td>glm,INLA,jags</td></tr><tr><td><a href="cox.stripsplit.html">cox.stripsplit</a></td><td></td><td></td><td>4</td><td></td><td>3,4,2</td><td>split-block</td><td>aov</td></tr><tr><td><a href="cullis.earlygen.html">cullis.earlygen</a></td><td>532</td><td></td><td></td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="damesa.maize.html">damesa.maize</a></td><td>22</td><td>4</td><td>3</td><td></td><td></td><td>xy,incblock,twostage</td><td>asreml</td></tr><tr><td><a href="dasilva.maize.html">dasilva.maize</a></td><td>55</td><td>9</td><td>3</td><td></td><td></td><td></td><td></td></tr><tr><td><a href="darwin.maize.html">darwin.maize</a></td><td></td><td></td><td>12</td><td></td><td>2</td><td></td><td>t.test</td></tr><tr><td><a href="davidian.soybean.html">davidian.soybean</a></td><td>2</td><td></td><td></td><td>3</td><td></td><td></td><td>nlme</td></tr><tr><td><a href="denis.missing.html">denis.missing</a></td><td>5</td><td>26</td><td></td><td></td><td></td><td></td><td>lme</td></tr><tr><td><a href="denis.ryegrass.html">denis.ryegrass</a></td><td>21</td><td>7</td><td></td><td></td><td></td><td></td><td>aov</td></tr><tr><td><a href="digby.jointregression.html">digby.jointregression</a></td><td>10</td><td>17</td><td></td><td></td><td>4</td><td></td><td>lm</td></tr><tr><td><a href="durban.competition.html">durban.competition</a></td><td>36</td><td></td><td>3</td><td></td><td></td><td>xy, competition</td><td>lm</td></tr><tr><td><a href="durban.rowcol.html">durban.rowcol</a></td><td>272</td><td></td><td>2</td><td></td><td></td><td>xy</td><td>lm, gam, asreml</td></tr><tr><td><a href="durban.splitplot.html">durban.splitplot</a></td><td>70</td><td></td><td>4</td><td></td><td>2</td><td>xy</td><td>lm, gam, asreml</td></tr><tr><td><a href="eden.potato.html">eden.potato</a></td><td></td><td></td><td>4</td><td>3</td><td>4-12</td><td>xy, rcb, latin</td><td>aov</td></tr><tr><td><a href="eden.nonnormal.html">eden.nonnormal</a></td><td></td><td></td><td>4</td><td></td><td>4</td><td></td><td>aov</td></tr><tr><td><a href="edwards.oats.html">edwards.oats</a></td><td>80</td><td>5</td><td>3</td><td>7</td><td></td><td></td><td></td></tr><tr><td><a href="engelstad.nitro.html">engelstad.nitro</a></td><td></td><td>2</td><td></td><td>5</td><td>6</td><td>rsm1</td><td>nls quadratic plateau</td></tr><tr><td><a href="fan.stability.html">fan.stability</a></td><td>13</td><td>10</td><td></td><td>2</td><td></td><td>3-way</td><td>stability</td></tr><tr><td><a href="federer.diagcheck.html">federer.diagcheck</a></td><td>122</td><td></td><td></td><td></td><td></td><td>xy</td><td>lm, lmer, asreml</td></tr><tr><td><a href="federer.tobacco.html">federer.tobacco</a></td><td></td><td></td><td>8</td><td></td><td>7</td><td>xy</td><td>lm</td></tr><tr><td><a href="fisher.barley.html">fisher.barley</a></td><td>5</td><td>6</td><td></td><td>2</td><td></td><td></td><td></td></tr><tr><td><a href="fisher.latin.html">fisher.latin</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>xy,latin</td><td>lm</td></tr><tr><td><a href="fox.wheat.html">fox.wheat</a></td><td>22</td><td>14</td><td></td><td></td><td></td><td></td><td>lm</td></tr><tr><td><a href="gathmann.bt.html">gathmann.bt</a></td><td>2</td><td></td><td>8</td><td></td><td></td><td></td><td>tost</td></tr><tr><td><a href="gauch.soy.html">gauch.soy</a></td><td>7</td><td>7</td><td>4</td><td>12</td><td></td><td></td><td>ammi</td></tr><tr><td><a href="george.wheat.html">george.wheat</a></td><td>211</td><td>9</td><td>4</td><td>15</td><td></td><td></td><td></td></tr><tr><td><a href="giles.wheat.html">giles.wheat</a></td><td>19</td><td></td><td></td><td>13</td><td></td><td>2 traits</td><td>gnm</td></tr><tr><td><a href="gilmour.serpentine.html">gilmour.serpentine</a></td><td>108</td><td></td><td>3</td><td></td><td></td><td>xy, serpentine</td><td>asreml</td></tr><tr><td><a href="gilmour.slatehall.html">gilmour.slatehall</a></td><td>25</td><td></td><td>6</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="gomez.fractionalfactorial.html">gomez.fractionalfactorial</a></td><td></td><td></td><td>2</td><td></td><td>1/2 2^6 = 2,2,2,2,2,2</td><td>xy,factorial</td><td>lm</td></tr><tr><td><a href="gomez.groupsplit.html">gomez.groupsplit</a></td><td>45</td><td></td><td>3</td><td></td><td>2</td><td>xy, 3 gen groups</td><td>aov</td></tr><tr><td><a href="gomez.heteroskedastic.html">gomez.heteroskedastic</a></td><td>35</td><td></td><td>3</td><td></td><td></td><td>hetero</td><td></td></tr><tr><td><a href="gomez.multilocsplitplot.html">gomez.multilocsplitplot</a></td><td>2</td><td>3</td><td>3</td><td></td><td></td><td>rsm1,nitro</td><td>aov, lmer</td></tr><tr><td><a href="gomez.nitrogen.html">gomez.nitrogen</a></td><td></td><td></td><td>4</td><td></td><td>8</td><td></td><td>aov, contrasts</td></tr><tr><td><a href="gomez.nonnormal1.html">gomez.nonnormal1</a></td><td></td><td></td><td>4</td><td></td><td>9</td><td>log10</td><td>lm</td></tr><tr><td><a href="gomez.nonnormal2.html">gomez.nonnormal2</a></td><td>14</td><td></td><td>3</td><td></td><td></td><td>sqrt</td><td>lm</td></tr><tr><td><a href="gomez.nonnormal3.html">gomez.nonnormal3</a></td><td>12</td><td></td><td>3</td><td></td><td></td><td>arcsin</td><td>lm</td></tr><tr><td><a href="gomez.seedrate.html">gomez.seedrate</a></td><td></td><td></td><td>4</td><td></td><td>6</td><td>rate</td><td>lm</td></tr><tr><td><a href="gomez.splitplot.subsample.html">gomez.splitplot.subsample</a></td><td></td><td></td><td>3</td><td></td><td>8,4</td><td>subsample</td><td>aov</td></tr><tr><td><a href="gomez.splitsplit.html">gomez.splitsplit</a></td><td>3</td><td></td><td>3</td><td></td><td></td><td>xy, nitro, mgmt</td><td>aov, lmer</td></tr><tr><td><a href="gomez.stripplot.html">gomez.stripplot</a></td><td>6</td><td></td><td>3</td><td></td><td></td><td>xy, nitro</td><td>aov</td></tr><tr><td><a href="gomez.stripsplitplot.html">gomez.stripsplitplot</a></td><td>6</td><td></td><td>3</td><td></td><td></td><td>xy, nitro</td><td>aov</td></tr><tr><td><a href="gomez.wetdry.html">gomez.wetdry</a></td><td></td><td></td><td>3</td><td>2</td><td>5</td><td>nitro</td><td>lmer</td></tr><tr><td><a href="gotway.hessianfly.html">gotway.hessianfly</a></td><td>16</td><td></td><td>4</td><td></td><td></td><td>xy</td><td>lmer</td></tr><tr><td><a href="goulden.latin.html">goulden.latin</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>xy, latin</td><td>lm</td></tr><tr><td><a href="goulden.splitsplit.html">goulden.splitsplit</a></td><td>2</td><td></td><td>4</td><td></td><td>2*5</td><td>xy, split</td><td>aov</td></tr><tr><td><a href="graybill.heteroskedastic.html">graybill.heteroskedastic</a></td><td>4</td><td>13</td><td></td><td></td><td></td><td>hetero</td><td></td></tr><tr><td><a href="gregory.cotton.html">gregory.cotton</a></td><td></td><td></td><td></td><td>2</td><td>4*3*2*2</td><td>polar</td><td></td></tr><tr><td><a href="grover.diallel.html">grover.diallel</a></td><td></td><td></td><td>4</td><td></td><td>6*6</td><td>diallel</td><td>lmDiallel</td></tr><tr><td><a href="grover.rcb.subsample.html">grover.rcb.subsample</a></td><td></td><td></td><td>4</td><td>2</td><td>9</td><td>subsample</td><td>aov</td></tr><tr><td><a href="gumpertz.pepper.html">gumpertz.pepper</a></td><td></td><td></td><td></td><td></td><td></td><td>xy</td><td>glm</td></tr><tr><td><a href="hadasch.lettuce.html">hadasch.lettuce</a></td><td>89</td><td>3</td><td>3</td><td></td><td></td><td>markers</td><td>asreml</td></tr><tr><td><a href="hanks.sprinkler.html">hanks.sprinkler</a></td><td>3</td><td></td><td>3</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="hayman.tobacco.html">hayman.tobacco</a></td><td>8</td><td></td><td>2</td><td>2</td><td></td><td>diallel</td><td>asreml</td></tr><tr><td><a href="hazell.vegetables.html">hazell.vegetables</a></td><td>4</td><td></td><td></td><td>6</td><td></td><td></td><td>linprog</td></tr><tr><td><a href="heady.fertilizer.html">heady.fertilizer</a></td><td></td><td></td><td>2</td><td></td><td>9*9</td><td>rsm2</td><td>lm,rgl</td></tr><tr><td><a href="hernandez.nitrogen.html">hernandez.nitrogen</a></td><td></td><td>5</td><td>4</td><td></td><td></td><td>rsm1</td><td>lm, nls</td></tr><tr><td><a href="hildebrand.systems.html">hildebrand.systems</a></td><td></td><td>14</td><td></td><td></td><td>4</td><td></td><td>asreml</td></tr><tr><td><a href="holshouser.splitstrip.html">holshouser.splitstrip</a></td><td>4</td><td></td><td>4</td><td></td><td>2*4</td><td>rsm1,pop</td><td>lmer</td></tr><tr><td><a href="huehn.wheat.html">huehn.wheat</a></td><td>20</td><td>10</td><td></td><td></td><td></td><td></td><td>huehn</td></tr><tr><td><a href="hughes.grapes.html">hughes.grapes</a></td><td></td><td></td><td>3</td><td></td><td>6</td><td>binomial</td><td>lmer, aod, glmm</td></tr><tr><td><a href="hunter.corn.html">hunter.corn</a></td><td></td><td>12</td><td></td><td>3</td><td>1</td><td>rsm1</td><td>xyplot</td></tr><tr><td><a href="ivins.herbs.html">ivins.herbs</a></td><td>13</td><td></td><td>6</td><td></td><td></td><td>2 traits</td><td>lm, friedman</td></tr><tr><td><a href="jansen.apple.html">jansen.apple</a></td><td>3</td><td></td><td>4</td><td></td><td>3</td><td>binomial</td><td>glmer</td></tr><tr><td><a href="jansen.carrot.html">jansen.carrot</a></td><td>16</td><td></td><td>3</td><td></td><td>2</td><td>binomial</td><td>glmer</td></tr><tr><td><a href="jansen.strawberry.html">jansen.strawberry</a></td><td>12</td><td></td><td>4</td><td></td><td></td><td>ordinal</td><td>mosaicplot</td></tr><tr><td><a href="jayaraman.bamboo.html">jayaraman.bamboo</a></td><td>6</td><td>2</td><td>3</td><td></td><td></td><td>heritability</td><td>lmer</td></tr><tr><td><a href="jenkyn.mildew.html">jenkyn.mildew</a></td><td></td><td></td><td>9</td><td></td><td>4</td><td></td><td>lm</td></tr><tr><td><a href="john.alpha.html">john.alpha</a></td><td>24</td><td></td><td>3</td><td></td><td></td><td>xy, alpha</td><td>lm, lmer</td></tr><tr><td><a href="johnson.blight.html">johnson.blight</a></td><td></td><td></td><td></td><td>2</td><td></td><td></td><td>logistic</td></tr><tr><td><a href="kang.maize.html">kang.maize</a></td><td>17</td><td>4</td><td></td><td>3</td><td>2,4</td><td></td><td></td></tr><tr><td><a href="kang.peanut.html">kang.peanut</a></td><td>10</td><td>15</td><td>4</td><td></td><td></td><td></td><td>gge</td></tr><tr><td><a href="karcher.turfgrass.html">karcher.turfgrass</a></td><td></td><td></td><td>4</td><td></td><td>2,4</td><td>ordinal</td><td>polr</td></tr><tr><td><a href="keen.potatodamage.html">keen.potatodamage</a></td><td>6</td><td></td><td>4</td><td></td><td>2,3,8</td><td>ordinal</td><td>mosaicplot,clmm</td></tr><tr><td><a href="kempton.competition.html">kempton.competition</a></td><td>36</td><td></td><td>3</td><td></td><td></td><td>xy, competition</td><td>lme AR1</td></tr><tr><td><a href="kempton.rowcol.html">kempton.rowcol</a></td><td>35</td><td></td><td>2</td><td></td><td></td><td>xy, row-col</td><td>lmer</td></tr><tr><td><a href="kling.augmented.html">kling.augmented</a></td><td>53</td><td></td><td>6</td><td></td><td></td><td>xy, augmented</td><td>lmer</td></tr><tr><td><a href="kempton.slatehall.html">kempton.slatehall</a></td><td>25</td><td></td><td>6</td><td></td><td></td><td>xy</td><td>asreml, lmer</td></tr><tr><td><a href="kirk.potato.html">kirk.potato</a></td><td>21</td><td></td><td>15</td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="lee.potatoblight.html">lee.potatoblight</a></td><td>337</td><td></td><td>4</td><td>11</td><td></td><td>xy, ordinal, repeated</td><td></td></tr><tr><td><a href="lehner.soybeanmold.html">lehner.soybeanmold</a></td><td></td><td>35</td><td></td><td>4</td><td>11</td><td></td><td>metafor, lmer</td></tr><tr><td><a href="lillemo.wheat.html">lillemo.wheat</a></td><td>24</td><td>13</td><td></td><td>7</td><td></td><td>qq</td><td>medpolish, huehn</td></tr><tr><td><a href="lin.superiority.html">lin.superiority</a></td><td>33</td><td>12</td><td></td><td></td><td></td><td></td><td>superiority</td></tr><tr><td><a href="lin.unbalanced.html">lin.unbalanced</a></td><td>33</td><td>18</td><td></td><td></td><td></td><td></td><td>superiority</td></tr><tr><td><a href="linder.wheat.html">linder.wheat</a></td><td>9</td><td>7</td><td>4</td><td></td><td></td><td></td><td>gge</td></tr><tr><td><a href="little.splitblock.html">little.splitblock</a></td><td></td><td></td><td>4</td><td></td><td>4,5</td><td>xy, split-block</td><td>aov</td></tr><tr><td><a href="lonnquist.maize.html">lonnquist.maize</a></td><td>11</td><td></td><td></td><td></td><td></td><td>diallel</td><td>asreml</td></tr><tr><td><a href="lyons.wheat.html">lyons.wheat</a></td><td></td><td>12</td><td></td><td>4</td><td></td><td></td><td></td></tr><tr><td><a href="lu.stability.html">lu.stability</a></td><td>5</td><td>6</td><td></td><td></td><td></td><td></td><td>huehn</td></tr><tr><td><a href="mcconway.turnip.html">mcconway.turnip</a></td><td>2</td><td></td><td>4</td><td></td><td>2,4</td><td>hetero</td><td>aov, lme</td></tr><tr><td><a href="mcleod.barley.html">mcleod.barley</a></td><td></td><td>8</td><td></td><td></td><td>6</td><td></td><td>aggregate</td></tr><tr><td><a href="mead.cauliflower.html">mead.cauliflower</a></td><td></td><td></td><td></td><td>2</td><td></td><td>poisson</td><td>glm</td></tr><tr><td><a href="mead.cowpea.maize.html">mead.cowpea.maize</a></td><td>3,2</td><td></td><td>3</td><td></td><td>4</td><td>intercrop</td><td></td></tr><tr><td><a href="mead.germination.html">mead.germination</a></td><td></td><td></td><td>4</td><td></td><td>4,4</td><td>binomial</td><td>glm</td></tr><tr><td><a href="mead.strawberry.html">mead.strawberry</a></td><td>8</td><td></td><td>4</td><td></td><td></td><td></td><td></td></tr><tr><td><a href="mead.turnip.html">mead.turnip</a></td><td></td><td></td><td>3</td><td></td><td>5,4</td><td></td><td>aov</td></tr><tr><td><a href="miguez.biomass.html">miguez.biomass</a></td><td>3</td><td></td><td>4</td><td></td><td></td><td></td><td></td></tr><tr><td><a href="minnesota.barley.weather.html">minnesota.barley.weather</a></td><td></td><td>6</td><td></td><td>10</td><td></td><td></td><td></td></tr><tr><td><a href="minnesota.barley.yield.html">minnesota.barley.yield</a></td><td>22</td><td>6</td><td></td><td>10</td><td></td><td></td><td>dotplot</td></tr><tr><td><a href="omer.sorghum.html">omer.sorghum</a></td><td>18</td><td>6</td><td>4</td><td></td><td></td><td></td><td>jags</td></tr><tr><td><a href="onofri.winterwheat.html">onofri.winterwheat</a></td><td>8</td><td></td><td>3</td><td>7</td><td></td><td></td><td>ammi</td></tr><tr><td><a href="ortiz.tomato.html">ortiz.tomato</a></td><td>15</td><td>18</td><td></td><td></td><td>16</td><td>env*gen~env*cov</td><td>pls</td></tr><tr><td><a href="pacheco.soybean.html">pacheco.soybean</a></td><td>18</td><td>11</td><td></td><td></td><td></td><td></td><td>ammi</td></tr><tr><td><a href="payne.wheat.html">payne.wheat</a></td><td></td><td></td><td></td><td>20</td><td>6</td><td>rotation</td><td>asreml</td></tr><tr><td><a href="pederson.lettuce.repeated.html">pederson.lettuce.repeated</a></td><td></td><td></td><td>18</td><td></td><td>3</td><td></td><td>nlme</td></tr><tr><td><a href="perry.springwheat.html">perry.springwheat</a></td><td>28</td><td>5</td><td></td><td>4</td><td></td><td>gain</td><td>lm,lmer,asreml</td></tr><tr><td><a href="petersen.sorghum.cowpea.html">petersen.sorghum.cowpea</a></td><td>2</td><td></td><td>4</td><td>7</td><td>4</td><td>intercrop</td><td></td></tr><tr><td><a href="piepho.cocksfoot.html">piepho.cocksfoot</a></td><td>25</td><td></td><td></td><td>7</td><td></td><td></td><td>mumm</td></tr><tr><td><a href="ratkowsky.onions.html">ratkowsky.onions</a></td><td></td><td></td><td></td><td></td><td></td><td></td><td>lm</td></tr><tr><td><a href="reid.grasses.html">reid.grasses</a></td><td>4</td><td></td><td></td><td>3</td><td>21</td><td></td><td>nlme SSfpl</td></tr><tr><td><a href="riddle.wheat.html">riddle.wheat</a></td><td>25</td><td></td><td>5</td><td>2</td><td></td><td>xy, latin</td><td>aov</td></tr><tr><td><a href="ridout.appleshoots.html">ridout.appleshoots</a></td><td></td><td></td><td>30</td><td></td><td>2,4</td><td>zip</td><td>zeroinfl</td></tr><tr><td><a href="rothamsted.brussels.html">rothamsted.brussels</a></td><td></td><td></td><td>4</td><td></td><td>6</td><td></td><td></td></tr><tr><td><a href="rothamsted.oats.html">rothamsted.oats</a></td><td></td><td></td><td>8</td><td></td><td>9</td><td>rcb</td><td></td></tr><tr><td><a href="ryder.groundnut.html">ryder.groundnut</a></td><td>5</td><td></td><td>4</td><td></td><td></td><td>xy, rcb</td><td>lm</td></tr><tr><td><a href="salmon.bunt.html">salmon.bunt</a></td><td>10</td><td></td><td>2</td><td></td><td>20</td><td></td><td>betareg</td></tr><tr><td><a href="senshu.rice.html">senshu.rice</a></td><td></td><td>40</td><td></td><td></td><td></td><td></td><td>lm,Fieller</td></tr><tr><td><a href="shafii.rapeseed.html">shafii.rapeseed</a></td><td>6</td><td>14</td><td>3</td><td>3</td><td></td><td></td><td>biplot</td></tr><tr><td><a href="shaw.oats.html">shaw.oats</a></td><td>13</td><td>2</td><td>5</td><td>3</td><td></td><td></td><td>aov</td></tr><tr><td><a href="sharma.met.html">sharma.met</a></td><td>7</td><td>3</td><td>3</td><td>2</td><td></td><td></td><td>FinlayWilkinson</td></tr><tr><td><a href="silva.cotton.html">silva.cotton</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>5 traits</td><td>glm,poisson</td></tr><tr><td><a href="sinclair.clover.html">sinclair.clover</a></td><td></td><td></td><td></td><td></td><td>5,5</td><td>rsm2,mitzerlich</td><td>nls,rgl</td></tr><tr><td><a href="snedecor.asparagus.html">snedecor.asparagus</a></td><td></td><td></td><td>4</td><td>4</td><td>4</td><td></td><td>split-plot, antedependence</td></tr><tr><td><a href="snijders.fusarium.html">snijders.fusarium</a></td><td>17</td><td></td><td></td><td>3</td><td>4</td><td>percent</td><td>glm/gnm,gammi</td></tr><tr><td><a href="steptoe.morex.pheno.html">steptoe.morex.pheno</a></td><td>152</td><td>16</td><td></td><td></td><td></td><td>10 traits</td><td></td></tr><tr><td><a href="steptoe.morex.pheno.html">steptoe.morex.geno</a></td><td>150</td><td></td><td></td><td></td><td></td><td>223 markers, qtl</td><td></td></tr><tr><td><a href="streibig.competition.html">streibig.competition</a></td><td>2</td><td></td><td>3</td><td></td><td></td><td></td><td>glm</td></tr><tr><td><a href="stroup.nin.html">stroup.nin</a></td><td>56</td><td></td><td>4</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="stroup.splitplot.html">stroup.splitplot</a></td><td></td><td></td><td>4</td><td></td><td></td><td></td><td>asreml, MCMCglmm</td></tr><tr><td><a href="student.barley.html">student.barley</a></td><td>2</td><td>51</td><td></td><td>6</td><td></td><td></td><td>lmer</td></tr><tr><td><a href="tai.potato.html">tai.potato</a></td><td>8</td><td>3</td><td></td><td>2</td><td></td><td></td><td>tai</td></tr><tr><td><a href="talbot.potato.html">talbot.potato</a></td><td>9</td><td>12</td><td></td><td></td><td></td><td>gen*env~gen*trt</td><td>pls</td></tr><tr><td><a href="tesfaye.millet.html">tesfaye.millet</a></td><td>47</td><td>2</td><td>2-3</td><td>2</td><td>4</td><td>xy</td><td>asreml</td></tr><tr><td><a href="theobald.barley.html">theobald.barley</a></td><td>3</td><td>5</td><td></td><td>2</td><td>5</td><td>rsm1</td><td></td></tr><tr><td><a href="theobald.covariate.html">theobald.covariate</a></td><td>10</td><td>7</td><td>5</td><td></td><td></td><td>cov</td><td>jags</td></tr><tr><td><a href="thompson.cornsoy.html">thompson.cornsoy</a></td><td></td><td>5</td><td></td><td>33</td><td></td><td>repeated measures</td><td>aov</td></tr><tr><td><a href="vaneeuwijk.fusarium.html">vaneeuwijk.fusarium</a></td><td>20</td><td></td><td></td><td>4</td><td>7</td><td>3-way</td><td>aov</td></tr><tr><td><a href="vaneeuwijk.drymatter.html">vaneeuwijk.drymatter</a></td><td>6</td><td>4</td><td></td><td>7</td><td></td><td>3-way</td><td>aov,lmer</td></tr><tr><td><a href="vaneeuwijk.nematodes.html">vaneeuwijk.nematodes</a></td><td>11</td><td></td><td></td><td></td><td></td><td>nonnormal,poisson</td><td>gnm, gammi</td></tr><tr><td><a href="vargas.wheat1.html">vargas.wheat1</a></td><td>7</td><td></td><td></td><td>6</td><td></td><td>gen*yr~gen*trt, yr*gen~yr*cov</td><td>pls</td></tr><tr><td><a href="vargas.wheat2.html">vargas.wheat2</a></td><td>8</td><td>7</td><td></td><td></td><td></td><td>env*gen~env*cov</td><td>pls</td></tr><tr><td><a href="vargas.txe.html">vargas.txe</a></td><td></td><td></td><td></td><td>10</td><td>24</td><td>yr*trt~yr*cov</td><td>pls</td></tr><tr><td><a href="verbyla.lupin.html">verbyla.lupin</a></td><td>9</td><td>8</td><td>3</td><td>2</td><td>7</td><td>rsm1, xy, density</td><td>asreml</td></tr><tr><td><a href="vold.longterm.html">vold.longterm</a></td><td></td><td></td><td></td><td>19</td><td>4</td><td>rsm1</td><td>nls,nlme</td></tr><tr><td><a href="vsn.lupin3.html">vsn.lupin3</a></td><td>336</td><td>3</td><td></td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="wedderburn.barley.html">wedderburn.barley</a></td><td>10</td><td>9</td><td></td><td></td><td></td><td>percent</td><td>glm/gnm</td></tr><tr><td><a href="weiss.incblock.html">weiss.incblock</a></td><td>31</td><td></td><td>6</td><td></td><td></td><td>xy,incblock</td><td>asreml</td></tr><tr><td><a href="weiss.lattice.html">weiss.lattice</a></td><td>49</td><td></td><td>4</td><td></td><td></td><td>xy,lattice</td><td>lm,asreml</td></tr><tr><td><a href="welch.bermudagrass.html">welch.bermudagrass</a></td><td></td><td></td><td></td><td></td><td>4,4,4</td><td>rsm3, factorial</td><td>lm, jags</td></tr><tr><td><a href="wheatley.carrot.html">wheatley.carrot</a></td><td></td><td></td><td>3</td><td></td><td>11</td><td></td><td>glm-binomial</td></tr><tr><td><a href="yan.winterwheat.html">yan.winterwheat</a></td><td>18</td><td>9</td><td></td><td></td><td></td><td></td><td>gge,biplot</td></tr><tr><td><a href="yang.barley.html">yang.barley</a></td><td>6</td><td>18</td><td></td><td></td><td></td><td></td><td>biplot</td></tr><tr><td><a href="yates.missing.html">yates.missing</a></td><td></td><td></td><td>10</td><td></td><td>3^2 = 3,3</td><td>factorial</td><td>lm, pca</td></tr><tr><td><a href="yates.oats.html">yates.oats</a></td><td>3</td><td></td><td>6</td><td></td><td></td><td>xy,split,nitro</td><td>lmer</td></tr></table><p><b>Time series</b></p><table class="table table"><tr><td>name</td><td>years</td><td>trt</td><td>other</td><td>model</td></tr><tr><td><a href="byers.apple.html">byers.apple</a></td><td></td><td></td><td></td><td>lme</td></tr><tr><td><a href="broadbalk.wheat.html">broadbalk.wheat</a></td><td>74</td><td>17</td><td></td><td></td></tr><tr><td><a href="hessling.argentina.html">hessling.argentina</a></td><td>30</td><td></td><td>temp,precip</td><td></td></tr><tr><td><a href="kreusler.maize.html">kreusler.maize</a></td><td>4</td><td>5</td><td>plant growth</td><td></td></tr><tr><td><a href="lambert.soiltemp.html">lambert.soiltemp</a></td><td>1</td><td>7</td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.barley</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.corn</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.cotton</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.hay</a></td><td>104</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.sorghum</a></td><td>93</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.wheat</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.rice</a></td><td>117</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.soybean</a></td><td>88</td><td></td><td></td><td></td></tr><tr><td><a href="walsh.cottonprice.html">walsh.cottonprice</a></td><td>34</td><td></td><td></td><td>cor</td></tr></table><p><b>Other</b></p>
+<table class="table table"><tr><td>name</td><td>gen</td><td>loc</td><td>reps</td><td>years</td><td>trt</td><td>other</td><td>model</td></tr><tr><td><a href="acorsi.grayleafspot.html">acorsi.grayleafspot</a></td><td>36</td><td>9</td><td>2</td><td>5</td><td></td><td>nonnormal</td><td>gnm,ammi</td></tr><tr><td><a href="adugna.sorghum.html">adugna.sorghum</a></td><td>28</td><td>13</td><td></td><td>5</td><td></td><td></td><td></td></tr><tr><td><a href="aastveit.barley.html">aastveit.barley</a></td><td>15</td><td></td><td></td><td>9</td><td></td><td>yr*gen~yr*trt</td><td>pls</td></tr><tr><td><a href="allcroft.lodging.html">allcroft.lodging</a></td><td>32</td><td>7</td><td></td><td></td><td></td><td>percent</td><td>tobit</td></tr><tr><td><a href="archbold.apple.html">archbold.apple</a></td><td>2</td><td></td><td>5</td><td></td><td>24</td><td>split-split</td><td>lmer</td></tr><tr><td><a href="ars.earlywhitecorn96.html">ars.earlywhitecorn96</a></td><td>60</td><td>9</td><td></td><td></td><td></td><td>6 traits</td><td>dotplot</td></tr><tr><td><a href="australia.soybean.html">australia.soybean</a></td><td>58</td><td>4</td><td></td><td>2</td><td></td><td>4-way, 6 traits</td><td>biplot</td></tr><tr><td><a href="bachmaier.nitrogen.html">bachmaier.nitrogen</a></td><td></td><td></td><td>4</td><td></td><td>2,11</td><td></td><td>quadratic lm</td></tr><tr><td><a href="barrero.maize.html">barrero.maize</a></td><td>847</td><td>16</td><td>4</td><td>11</td><td>6</td><td></td><td>gain,asreml</td></tr><tr><td><a href="battese.survey.html">battese.survey</a></td><td></td><td>12</td><td>1-5</td><td></td><td>2</td><td></td><td>lmer</td></tr><tr><td><a href="beall.webworms.html">beall.webworms</a></td><td></td><td></td><td>15</td><td></td><td>2,2</td><td>xy, split-block</td><td>glm poisson,nb</td></tr><tr><td><a href="beaven.barley.html">beaven.barley</a></td><td>8</td><td></td><td>20</td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="belamkar.augmented.html">belamkar.augmented</a></td><td>273</td><td>8</td><td></td><td></td><td></td><td>xy, incblock</td><td>asreml</td></tr><tr><td><a href="besag.bayesian.html">besag.bayesian</a></td><td>75</td><td></td><td>3</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="besag.beans.html">besag.beans</a></td><td>6</td><td></td><td>4*6</td><td></td><td></td><td>xy</td><td>lm,competition</td></tr><tr><td><a href="besag.checks.html">besag.checks</a></td><td>2</td><td></td><td></td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="besag.elbatan.html">besag.elbatan</a></td><td>50</td><td></td><td>3</td><td></td><td></td><td>xy</td><td>lm, gam</td></tr><tr><td><a href="besag.endive.html">besag.endive</a></td><td></td><td></td><td></td><td></td><td></td><td>xy,binary</td><td>autologistic</td></tr><tr><td><a href="besag.met.html">besag.met</a></td><td>64</td><td>6</td><td>3</td><td></td><td></td><td>xy, incblock</td><td>asreml, lme</td></tr><tr><td><a href="besag.triticale.html">besag.triticale</a></td><td>3</td><td></td><td></td><td></td><td>2,2,3</td><td>xy</td><td>lm, asreml</td></tr><tr><td><a href="bliss.borers.html">bliss.borers</a></td><td></td><td></td><td></td><td></td><td>4</td><td></td><td>glm</td></tr><tr><td><a href="blackman.wheat.html">blackman.wheat</a></td><td>12</td><td>7</td><td></td><td></td><td>2</td><td></td><td>biplot</td></tr><tr><td><a href="bond.diallel.html">bond.diallel</a></td><td>6*6</td><td></td><td></td><td></td><td>9</td><td>diallel</td><td></td></tr><tr><td><a href="bridges.cucumber.html">bridges.cucumber</a></td><td>4</td><td>2</td><td>4</td><td></td><td></td><td>xy, latin, hetero</td><td>asreml</td></tr><tr><td><a href="brandle.rape.html">brandle.rape</a></td><td>5</td><td>9</td><td></td><td>3</td><td></td><td></td><td>lmer</td></tr><tr><td><a href="buntaran.wheat.html">buntaran.wheat</a></td><td>30</td><td>18</td><td>2</td><td></td><td></td><td>alpha</td><td>asreml</td></tr><tr><td><a href="burgueno.alpha.html">burgueno.alpha</a></td><td>15</td><td></td><td>3</td><td></td><td></td><td>xy, alpha</td><td>asreml,lmer</td></tr><tr><td><a href="burgueno.rowcol.html">burgueno.rowcol</a></td><td>64</td><td></td><td>2</td><td></td><td></td><td>xy, row-col</td><td>asreml,lmer</td></tr><tr><td><a href="burgueno.unreplicated.html">burgueno.unreplicated</a></td><td>280</td><td></td><td></td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="butron.maize.html">butron.maize</a></td><td>49</td><td>3</td><td></td><td>2</td><td></td><td>diallel,pedigree</td><td>biplot,asreml</td></tr><tr><td><a href="caribbean.maize.html">caribbean.maize</a></td><td></td><td>17</td><td>4</td><td></td><td>3</td><td></td><td></td></tr><tr><td><a href="carmer.density.html">carmer.density</a></td><td>8</td><td></td><td></td><td></td><td>4</td><td></td><td>nls,nlme</td></tr><tr><td><a href="carlson.germination.html">carlson.germination</a></td><td>15</td><td></td><td></td><td></td><td>8</td><td></td><td>glm</td></tr><tr><td><a href="chakravertti.factorial.html">chakravertti.factorial</a></td><td>3</td><td></td><td>3</td><td></td><td>3,5,3,3</td><td>factorial</td><td>aov</td></tr><tr><td><a href="chinloy.fractionalfactorial.html">chinloy.fractionalfactorial</a></td><td></td><td></td><td>9</td><td></td><td>1/3 3^5 = 3,3,3,3</td><td>xy,factorial</td><td>aov</td></tr><tr><td><a href="christidis.competition.html">christidis.competition</a></td><td>9</td><td></td><td>5</td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="cochran.beets.html">cochran.beets</a></td><td></td><td></td><td>6</td><td></td><td>7</td><td></td><td></td></tr><tr><td><a href="cochran.bib.html">cochran.bib</a></td><td>13</td><td>13</td><td></td><td></td><td></td><td>bib</td><td>aov, lme</td></tr><tr><td><a href="cochran.crd.html">cochran.crd</a></td><td></td><td></td><td></td><td></td><td>7</td><td>xy, crd</td><td>aov</td></tr><tr><td><a href="cochran.factorial.html">cochran.factorial</a></td><td></td><td></td><td>2</td><td></td><td>2,2,2,2 = 2^4</td><td>factorial</td><td>aov</td></tr><tr><td><a href="cochran.latin.html">cochran.latin</a></td><td></td><td></td><td>6</td><td></td><td>6</td><td>xy, latin</td><td>aov</td></tr><tr><td><a href="cochran.lattice.html">cochran.lattice</a></td><td></td><td></td><td>5</td><td></td><td>16</td><td>xy, latin</td><td>lmer</td></tr><tr><td><a href="cochran.wireworms.html">cochran.wireworms</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>xy, latin</td><td>glm</td></tr><tr><td><a href="cochran.eelworms.html">cochran.eelworms</a></td><td></td><td></td><td>4</td><td></td><td>5</td><td>xy</td><td>aov</td></tr><tr><td><a href="connolly.potato.html">connolly.potato</a></td><td>20</td><td></td><td>4</td><td></td><td></td><td>xy, competition</td><td>lm</td></tr><tr><td><a href="cornelius.maize.html">cornelius.maize</a></td><td>9</td><td>20</td><td></td><td></td><td></td><td></td><td>svd</td></tr><tr><td><a href="corsten.interaction.html">corsten.interaction</a></td><td>20</td><td>7</td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><a href="cramer.cucumber.html">cramer.cucumber</a></td><td></td><td></td><td>8</td><td></td><td></td><td></td><td>pathcoef</td></tr><tr><td><a href="crossa.wheat.html">crossa.wheat</a></td><td>18</td><td>25</td><td></td><td></td><td></td><td></td><td>ammi</td></tr><tr><td><a href="crowder.seeds.html">crowder.seeds</a></td><td>2</td><td></td><td>21</td><td></td><td>2</td><td></td><td>glm,INLA,jags</td></tr><tr><td><a href="cox.stripsplit.html">cox.stripsplit</a></td><td></td><td></td><td>4</td><td></td><td>3,4,2</td><td>split-block</td><td>aov</td></tr><tr><td><a href="cullis.earlygen.html">cullis.earlygen</a></td><td>532</td><td></td><td></td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="damesa.maize.html">damesa.maize</a></td><td>22</td><td>4</td><td>3</td><td></td><td></td><td>xy,incblock,twostage</td><td>asreml</td></tr><tr><td><a href="dasilva.maize.html">dasilva.maize</a></td><td>55</td><td>9</td><td>3</td><td></td><td></td><td></td><td></td></tr><tr><td><a href="darwin.maize.html">darwin.maize</a></td><td></td><td></td><td>12</td><td></td><td>2</td><td></td><td>t.test</td></tr><tr><td><a href="davidian.soybean.html">davidian.soybean</a></td><td>2</td><td></td><td></td><td>3</td><td></td><td></td><td>nlme</td></tr><tr><td><a href="denis.missing.html">denis.missing</a></td><td>5</td><td>26</td><td></td><td></td><td></td><td></td><td>lme</td></tr><tr><td><a href="denis.ryegrass.html">denis.ryegrass</a></td><td>21</td><td>7</td><td></td><td></td><td></td><td></td><td>aov</td></tr><tr><td><a href="digby.jointregression.html">digby.jointregression</a></td><td>10</td><td>17</td><td></td><td></td><td>4</td><td></td><td>lm</td></tr><tr><td><a href="durban.competition.html">durban.competition</a></td><td>36</td><td></td><td>3</td><td></td><td></td><td>xy, competition</td><td>lm</td></tr><tr><td><a href="durban.rowcol.html">durban.rowcol</a></td><td>272</td><td></td><td>2</td><td></td><td></td><td>xy</td><td>lm, gam, asreml</td></tr><tr><td><a href="durban.splitplot.html">durban.splitplot</a></td><td>70</td><td></td><td>4</td><td></td><td>2</td><td>xy</td><td>lm, gam, asreml</td></tr><tr><td><a href="eden.potato.html">eden.potato</a></td><td></td><td></td><td>4</td><td>3</td><td>4-12</td><td>xy, rcb, latin</td><td>aov</td></tr><tr><td><a href="eden.nonnormal.html">eden.nonnormal</a></td><td></td><td></td><td>4</td><td></td><td>4</td><td></td><td>aov</td></tr><tr><td><a href="edwards.oats.html">edwards.oats</a></td><td>80</td><td>5</td><td>3</td><td>7</td><td></td><td></td><td></td></tr><tr><td><a href="engelstad.nitro.html">engelstad.nitro</a></td><td></td><td>2</td><td></td><td>5</td><td>6</td><td>rsm1</td><td>nls quadratic plateau</td></tr><tr><td><a href="fan.stability.html">fan.stability</a></td><td>13</td><td>10</td><td></td><td>2</td><td></td><td>3-way</td><td>stability</td></tr><tr><td><a href="federer.diagcheck.html">federer.diagcheck</a></td><td>122</td><td></td><td></td><td></td><td></td><td>xy</td><td>lm, lmer, asreml</td></tr><tr><td><a href="federer.tobacco.html">federer.tobacco</a></td><td></td><td></td><td>8</td><td></td><td>7</td><td>xy</td><td>lm</td></tr><tr><td><a href="fisher.barley.html">fisher.barley</a></td><td>5</td><td>6</td><td></td><td>2</td><td></td><td></td><td></td></tr><tr><td><a href="fisher.latin.html">fisher.latin</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>xy,latin</td><td>lm</td></tr><tr><td><a href="fox.wheat.html">fox.wheat</a></td><td>22</td><td>14</td><td></td><td></td><td></td><td></td><td>lm</td></tr><tr><td><a href="gathmann.bt.html">gathmann.bt</a></td><td>2</td><td></td><td>8</td><td></td><td></td><td></td><td>tost</td></tr><tr><td><a href="gauch.soy.html">gauch.soy</a></td><td>7</td><td>7</td><td>4</td><td>12</td><td></td><td></td><td>ammi</td></tr><tr><td><a href="george.wheat.html">george.wheat</a></td><td>211</td><td>9</td><td>4</td><td>15</td><td></td><td></td><td></td></tr><tr><td><a href="giles.wheat.html">giles.wheat</a></td><td>19</td><td></td><td></td><td>13</td><td></td><td>2 traits</td><td>gnm</td></tr><tr><td><a href="gilmour.serpentine.html">gilmour.serpentine</a></td><td>108</td><td></td><td>3</td><td></td><td></td><td>xy, serpentine</td><td>asreml</td></tr><tr><td><a href="gilmour.slatehall.html">gilmour.slatehall</a></td><td>25</td><td></td><td>6</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="gomez.fractionalfactorial.html">gomez.fractionalfactorial</a></td><td></td><td></td><td>2</td><td></td><td>1/2 2^6 = 2,2,2,2,2,2</td><td>xy,factorial</td><td>lm</td></tr><tr><td><a href="gomez.groupsplit.html">gomez.groupsplit</a></td><td>45</td><td></td><td>3</td><td></td><td>2</td><td>xy, 3 gen groups</td><td>aov</td></tr><tr><td><a href="gomez.heteroskedastic.html">gomez.heteroskedastic</a></td><td>35</td><td></td><td>3</td><td></td><td></td><td>hetero</td><td></td></tr><tr><td><a href="gomez.multilocsplitplot.html">gomez.multilocsplitplot</a></td><td>2</td><td>3</td><td>3</td><td></td><td></td><td>rsm1,nitro</td><td>aov, lmer</td></tr><tr><td><a href="gomez.nitrogen.html">gomez.nitrogen</a></td><td></td><td></td><td>4</td><td></td><td>8</td><td></td><td>aov, contrasts</td></tr><tr><td><a href="gomez.nonnormal1.html">gomez.nonnormal1</a></td><td></td><td></td><td>4</td><td></td><td>9</td><td>log10</td><td>lm</td></tr><tr><td><a href="gomez.nonnormal2.html">gomez.nonnormal2</a></td><td>14</td><td></td><td>3</td><td></td><td></td><td>sqrt</td><td>lm</td></tr><tr><td><a href="gomez.nonnormal3.html">gomez.nonnormal3</a></td><td>12</td><td></td><td>3</td><td></td><td></td><td>arcsin</td><td>lm</td></tr><tr><td><a href="gomez.seedrate.html">gomez.seedrate</a></td><td></td><td></td><td>4</td><td></td><td>6</td><td>rate</td><td>lm</td></tr><tr><td><a href="gomez.splitplot.subsample.html">gomez.splitplot.subsample</a></td><td></td><td></td><td>3</td><td></td><td>8,4</td><td>subsample</td><td>aov</td></tr><tr><td><a href="gomez.splitsplit.html">gomez.splitsplit</a></td><td>3</td><td></td><td>3</td><td></td><td></td><td>xy, nitro, mgmt</td><td>aov, lmer</td></tr><tr><td><a href="gomez.stripplot.html">gomez.stripplot</a></td><td>6</td><td></td><td>3</td><td></td><td></td><td>xy, nitro</td><td>aov</td></tr><tr><td><a href="gomez.stripsplitplot.html">gomez.stripsplitplot</a></td><td>6</td><td></td><td>3</td><td></td><td></td><td>xy, nitro</td><td>aov</td></tr><tr><td><a href="gomez.wetdry.html">gomez.wetdry</a></td><td></td><td></td><td>3</td><td>2</td><td>5</td><td>nitro</td><td>lmer</td></tr><tr><td><a href="gotway.hessianfly.html">gotway.hessianfly</a></td><td>16</td><td></td><td>4</td><td></td><td></td><td>xy</td><td>lmer</td></tr><tr><td><a href="goulden.latin.html">goulden.latin</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>xy, latin</td><td>lm</td></tr><tr><td><a href="goulden.splitsplit.html">goulden.splitsplit</a></td><td>2</td><td></td><td>4</td><td></td><td>2*5</td><td>xy, split</td><td>aov</td></tr><tr><td><a href="graybill.heteroskedastic.html">graybill.heteroskedastic</a></td><td>4</td><td>13</td><td></td><td></td><td></td><td>hetero</td><td></td></tr><tr><td><a href="gregory.cotton.html">gregory.cotton</a></td><td></td><td></td><td></td><td>2</td><td>4*3*2*2</td><td>polar</td><td></td></tr><tr><td><a href="grover.diallel.html">grover.diallel</a></td><td></td><td></td><td>4</td><td></td><td>6*6</td><td>diallel</td><td>lmDiallel</td></tr><tr><td><a href="grover.rcb.subsample.html">grover.rcb.subsample</a></td><td></td><td></td><td>4</td><td>2</td><td>9</td><td>subsample</td><td>aov</td></tr><tr><td><a href="gumpertz.pepper.html">gumpertz.pepper</a></td><td></td><td></td><td></td><td></td><td></td><td>xy</td><td>glm</td></tr><tr><td><a href="hadasch.lettuce.html">hadasch.lettuce</a></td><td>89</td><td>3</td><td>3</td><td></td><td></td><td>markers</td><td>asreml</td></tr><tr><td><a href="hanks.sprinkler.html">hanks.sprinkler</a></td><td>3</td><td></td><td>3</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="hayman.tobacco.html">hayman.tobacco</a></td><td>8</td><td></td><td>2</td><td>2</td><td></td><td>diallel</td><td>asreml</td></tr><tr><td><a href="hazell.vegetables.html">hazell.vegetables</a></td><td>4</td><td></td><td></td><td>6</td><td></td><td></td><td>linprog</td></tr><tr><td><a href="heady.fertilizer.html">heady.fertilizer</a></td><td></td><td></td><td>2</td><td></td><td>9*9</td><td>rsm2</td><td>lm,rgl</td></tr><tr><td><a href="hernandez.nitrogen.html">hernandez.nitrogen</a></td><td></td><td>5</td><td>4</td><td></td><td></td><td>rsm1</td><td>lm, nls</td></tr><tr><td><a href="hildebrand.systems.html">hildebrand.systems</a></td><td></td><td>14</td><td></td><td></td><td>4</td><td></td><td>asreml</td></tr><tr><td><a href="holshouser.splitstrip.html">holshouser.splitstrip</a></td><td>4</td><td></td><td>4</td><td></td><td>2*4</td><td>rsm1,pop</td><td>lmer</td></tr><tr><td><a href="huehn.wheat.html">huehn.wheat</a></td><td>20</td><td>10</td><td></td><td></td><td></td><td></td><td>huehn</td></tr><tr><td><a href="hughes.grapes.html">hughes.grapes</a></td><td></td><td></td><td>3</td><td></td><td>6</td><td>binomial</td><td>lmer, aod, glmm</td></tr><tr><td><a href="hunter.corn.html">hunter.corn</a></td><td></td><td>12</td><td></td><td>3</td><td>1</td><td>rsm1</td><td>xyplot</td></tr><tr><td><a href="ivins.herbs.html">ivins.herbs</a></td><td>13</td><td></td><td>6</td><td></td><td></td><td>2 traits</td><td>lm, friedman</td></tr><tr><td><a href="jansen.apple.html">jansen.apple</a></td><td>3</td><td></td><td>4</td><td></td><td>3</td><td>binomial</td><td>glmer</td></tr><tr><td><a href="jansen.carrot.html">jansen.carrot</a></td><td>16</td><td></td><td>3</td><td></td><td>2</td><td>binomial</td><td>glmer</td></tr><tr><td><a href="jansen.strawberry.html">jansen.strawberry</a></td><td>12</td><td></td><td>4</td><td></td><td></td><td>ordinal</td><td>mosaicplot</td></tr><tr><td><a href="jayaraman.bamboo.html">jayaraman.bamboo</a></td><td>6</td><td>2</td><td>3</td><td></td><td></td><td>heritability</td><td>lmer</td></tr><tr><td><a href="jenkyn.mildew.html">jenkyn.mildew</a></td><td></td><td></td><td>9</td><td></td><td>4</td><td></td><td>lm</td></tr><tr><td><a href="john.alpha.html">john.alpha</a></td><td>24</td><td></td><td>3</td><td></td><td></td><td>xy, alpha</td><td>lm, lmer</td></tr><tr><td><a href="johnson.blight.html">johnson.blight</a></td><td></td><td></td><td></td><td>2</td><td></td><td></td><td>logistic</td></tr><tr><td><a href="kang.maize.html">kang.maize</a></td><td>17</td><td>4</td><td></td><td>3</td><td>2,4</td><td></td><td></td></tr><tr><td><a href="kang.peanut.html">kang.peanut</a></td><td>10</td><td>15</td><td>4</td><td></td><td></td><td></td><td>gge</td></tr><tr><td><a href="karcher.turfgrass.html">karcher.turfgrass</a></td><td></td><td></td><td>4</td><td></td><td>2,4</td><td>ordinal</td><td>polr</td></tr><tr><td><a href="keen.potatodamage.html">keen.potatodamage</a></td><td>6</td><td></td><td>4</td><td></td><td>2,3,8</td><td>ordinal</td><td>mosaicplot,clmm</td></tr><tr><td><a href="kempton.competition.html">kempton.competition</a></td><td>36</td><td></td><td>3</td><td></td><td></td><td>xy, competition</td><td>lme AR1</td></tr><tr><td><a href="kempton.rowcol.html">kempton.rowcol</a></td><td>35</td><td></td><td>2</td><td></td><td></td><td>xy, row-col</td><td>lmer</td></tr><tr><td><a href="kling.augmented.html">kling.augmented</a></td><td>53</td><td></td><td>6</td><td></td><td></td><td>xy, augmented</td><td>lmer</td></tr><tr><td><a href="kempton.slatehall.html">kempton.slatehall</a></td><td>25</td><td></td><td>6</td><td></td><td></td><td>xy</td><td>asreml, lmer</td></tr><tr><td><a href="kirk.potato.html">kirk.potato</a></td><td>21</td><td></td><td>15</td><td></td><td></td><td>xy</td><td></td></tr><tr><td><a href="lee.potatoblight.html">lee.potatoblight</a></td><td>337</td><td></td><td>4</td><td>11</td><td></td><td>xy, ordinal, repeated</td><td></td></tr><tr><td><a href="lehner.soybeanmold.html">lehner.soybeanmold</a></td><td></td><td>35</td><td></td><td>4</td><td>11</td><td></td><td>metafor, lmer</td></tr><tr><td><a href="lillemo.wheat.html">lillemo.wheat</a></td><td>24</td><td>13</td><td></td><td>7</td><td></td><td>qq</td><td>medpolish, huehn</td></tr><tr><td><a href="lin.superiority.html">lin.superiority</a></td><td>33</td><td>12</td><td></td><td></td><td></td><td></td><td>superiority</td></tr><tr><td><a href="lin.unbalanced.html">lin.unbalanced</a></td><td>33</td><td>18</td><td></td><td></td><td></td><td></td><td>superiority</td></tr><tr><td><a href="linder.wheat.html">linder.wheat</a></td><td>9</td><td>7</td><td>4</td><td></td><td></td><td></td><td>gge</td></tr><tr><td><a href="little.splitblock.html">little.splitblock</a></td><td></td><td></td><td>4</td><td></td><td>4,5</td><td>xy, split-block</td><td>aov</td></tr><tr><td><a href="lonnquist.maize.html">lonnquist.maize</a></td><td>11</td><td></td><td></td><td></td><td></td><td>diallel</td><td>asreml</td></tr><tr><td><a href="lyons.wheat.html">lyons.wheat</a></td><td></td><td>12</td><td></td><td>4</td><td></td><td></td><td></td></tr><tr><td><a href="lu.stability.html">lu.stability</a></td><td>5</td><td>6</td><td></td><td></td><td></td><td></td><td>huehn</td></tr><tr><td><a href="mcconway.turnip.html">mcconway.turnip</a></td><td>2</td><td></td><td>4</td><td></td><td>2,4</td><td>hetero</td><td>aov, lme</td></tr><tr><td><a href="mcleod.barley.html">mcleod.barley</a></td><td></td><td>8</td><td></td><td></td><td>6</td><td></td><td>aggregate</td></tr><tr><td><a href="mead.cauliflower.html">mead.cauliflower</a></td><td></td><td></td><td></td><td>2</td><td></td><td>poisson</td><td>glm</td></tr><tr><td><a href="mead.cowpea.maize.html">mead.cowpea.maize</a></td><td>3,2</td><td></td><td>3</td><td></td><td>4</td><td>intercrop</td><td></td></tr><tr><td><a href="mead.germination.html">mead.germination</a></td><td></td><td></td><td>4</td><td></td><td>4,4</td><td>binomial</td><td>glm</td></tr><tr><td><a href="mead.strawberry.html">mead.strawberry</a></td><td>8</td><td></td><td>4</td><td></td><td></td><td></td><td></td></tr><tr><td><a href="mead.turnip.html">mead.turnip</a></td><td></td><td></td><td>3</td><td></td><td>5,4</td><td></td><td>aov</td></tr><tr><td><a href="miguez.biomass.html">miguez.biomass</a></td><td>3</td><td></td><td>4</td><td></td><td></td><td></td><td></td></tr><tr><td><a href="minnesota.barley.weather.html">minnesota.barley.weather</a></td><td></td><td>6</td><td></td><td>10</td><td></td><td></td><td></td></tr><tr><td><a href="minnesota.barley.yield.html">minnesota.barley.yield</a></td><td>22</td><td>6</td><td></td><td>10</td><td></td><td></td><td>dotplot</td></tr><tr><td><a href="omer.sorghum.html">omer.sorghum</a></td><td>18</td><td>6</td><td>4</td><td></td><td></td><td></td><td>jags</td></tr><tr><td><a href="onofri.winterwheat.html">onofri.winterwheat</a></td><td>8</td><td></td><td>3</td><td>7</td><td></td><td></td><td>ammi</td></tr><tr><td><a href="ortiz.tomato.html">ortiz.tomato</a></td><td>15</td><td>18</td><td></td><td></td><td>16</td><td>env*gen~env*cov</td><td>pls</td></tr><tr><td><a href="pacheco.soybean.html">pacheco.soybean</a></td><td>18</td><td>11</td><td></td><td></td><td></td><td></td><td>ammi</td></tr><tr><td><a href="payne.wheat.html">payne.wheat</a></td><td></td><td></td><td></td><td>20</td><td>6</td><td>rotation</td><td>asreml</td></tr><tr><td><a href="pederson.lettuce.repeated.html">pederson.lettuce.repeated</a></td><td></td><td></td><td>18</td><td></td><td>3</td><td></td><td>nlme</td></tr><tr><td><a href="perry.springwheat.html">perry.springwheat</a></td><td>28</td><td>5</td><td></td><td>4</td><td></td><td>gain</td><td>lm,lmer,asreml</td></tr><tr><td><a href="petersen.sorghum.cowpea.html">petersen.sorghum.cowpea</a></td><td>2</td><td></td><td>4</td><td>7</td><td>4</td><td>intercrop</td><td></td></tr><tr><td><a href="piepho.cocksfoot.html">piepho.cocksfoot</a></td><td>25</td><td></td><td></td><td>7</td><td></td><td></td><td>mumm</td></tr><tr><td><a href="ratkowsky.onions.html">ratkowsky.onions</a></td><td></td><td></td><td></td><td></td><td></td><td></td><td>lm</td></tr><tr><td><a href="reid.grasses.html">reid.grasses</a></td><td>4</td><td></td><td></td><td>3</td><td>21</td><td></td><td>nlme SSfpl</td></tr><tr><td><a href="riddle.wheat.html">riddle.wheat</a></td><td>25</td><td></td><td>5</td><td>2</td><td></td><td>xy, latin</td><td>aov</td></tr><tr><td><a href="ridout.appleshoots.html">ridout.appleshoots</a></td><td></td><td></td><td>30</td><td></td><td>2,4</td><td>zip</td><td>zeroinfl</td></tr><tr><td><a href="rothamsted.brussels.html">rothamsted.brussels</a></td><td></td><td></td><td>4</td><td></td><td>6</td><td></td><td></td></tr><tr><td><a href="rothamsted.oats.html">rothamsted.oats</a></td><td></td><td></td><td>8</td><td></td><td>9</td><td>rcb</td><td></td></tr><tr><td><a href="ryder.groundnut.html">ryder.groundnut</a></td><td>5</td><td></td><td>4</td><td></td><td></td><td>xy, rcb</td><td>lm</td></tr><tr><td><a href="salmon.bunt.html">salmon.bunt</a></td><td>10</td><td></td><td>2</td><td></td><td>20</td><td></td><td>betareg</td></tr><tr><td><a href="senshu.rice.html">senshu.rice</a></td><td></td><td>40</td><td></td><td></td><td></td><td></td><td>lm,Fieller</td></tr><tr><td><a href="shafii.rapeseed.html">shafii.rapeseed</a></td><td>6</td><td>14</td><td>3</td><td>3</td><td></td><td></td><td>biplot</td></tr><tr><td><a href="shaw.oats.html">shaw.oats</a></td><td>13</td><td>2</td><td>5</td><td>3</td><td></td><td></td><td>aov</td></tr><tr><td><a href="sharma.met.html">sharma.met</a></td><td>7</td><td>3</td><td>3</td><td>2</td><td></td><td></td><td>FinlayWilkinson</td></tr><tr><td><a href="silva.cotton.html">silva.cotton</a></td><td></td><td></td><td>5</td><td></td><td>5</td><td>5 traits</td><td>glm,poisson</td></tr><tr><td><a href="sinclair.clover.html">sinclair.clover</a></td><td></td><td></td><td></td><td></td><td>5,5</td><td>rsm2,mitzerlich</td><td>nls,rgl</td></tr><tr><td><a href="snedecor.asparagus.html">snedecor.asparagus</a></td><td></td><td></td><td>4</td><td>4</td><td>4</td><td></td><td>split-plot, antedependence</td></tr><tr><td><a href="snijders.fusarium.html">snijders.fusarium</a></td><td>17</td><td></td><td></td><td>3</td><td>4</td><td>percent</td><td>glm/gnm,gammi</td></tr><tr><td><a href="steptoe.morex.pheno.html">steptoe.morex.pheno</a></td><td>152</td><td>16</td><td></td><td></td><td></td><td>10 traits</td><td></td></tr><tr><td><a href="steptoe.morex.pheno.html">steptoe.morex.geno</a></td><td>150</td><td></td><td></td><td></td><td></td><td>223 markers, qtl</td><td></td></tr><tr><td><a href="streibig.competition.html">streibig.competition</a></td><td>2</td><td></td><td>3</td><td></td><td></td><td></td><td>glm</td></tr><tr><td><a href="stroup.nin.html">stroup.nin</a></td><td>56</td><td></td><td>4</td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="stroup.splitplot.html">stroup.splitplot</a></td><td></td><td></td><td>4</td><td></td><td></td><td></td><td>asreml, MCMCglmm</td></tr><tr><td><a href="student.barley.html">student.barley</a></td><td>2</td><td>51</td><td></td><td>6</td><td></td><td></td><td>lmer</td></tr><tr><td><a href="tai.potato.html">tai.potato</a></td><td>8</td><td>3</td><td></td><td>2</td><td></td><td></td><td>tai</td></tr><tr><td><a href="talbot.potato.html">talbot.potato</a></td><td>9</td><td>12</td><td></td><td></td><td></td><td>gen*env~gen*trt</td><td>pls</td></tr><tr><td><a href="tesfaye.millet.html">tesfaye.millet</a></td><td>47</td><td>2</td><td>2-3</td><td>2</td><td>4</td><td>xy</td><td>asreml</td></tr><tr><td><a href="theobald.barley.html">theobald.barley</a></td><td>3</td><td>5</td><td></td><td>2</td><td>5</td><td>rsm1</td><td></td></tr><tr><td><a href="theobald.covariate.html">theobald.covariate</a></td><td>10</td><td>7</td><td>5</td><td></td><td></td><td>cov</td><td>jags</td></tr><tr><td><a href="thompson.cornsoy.html">thompson.cornsoy</a></td><td></td><td>5</td><td></td><td>33</td><td></td><td>repeated measures</td><td>aov</td></tr><tr><td><a href="vaneeuwijk.fusarium.html">vaneeuwijk.fusarium</a></td><td>20</td><td></td><td></td><td>4</td><td>7</td><td>3-way</td><td>aov</td></tr><tr><td><a href="vaneeuwijk.drymatter.html">vaneeuwijk.drymatter</a></td><td>6</td><td>4</td><td></td><td>7</td><td></td><td>3-way</td><td>aov,lmer</td></tr><tr><td><a href="vaneeuwijk.nematodes.html">vaneeuwijk.nematodes</a></td><td>11</td><td></td><td></td><td></td><td></td><td>nonnormal,poisson</td><td>gnm, gammi</td></tr><tr><td><a href="vargas.wheat1.html">vargas.wheat1</a></td><td>7</td><td></td><td></td><td>6</td><td></td><td>gen*yr~gen*trt, yr*gen~yr*cov</td><td>pls</td></tr><tr><td><a href="vargas.wheat2.html">vargas.wheat2</a></td><td>8</td><td>7</td><td></td><td></td><td></td><td>env*gen~env*cov</td><td>pls</td></tr><tr><td><a href="vargas.txe.html">vargas.txe</a></td><td></td><td></td><td></td><td>10</td><td>24</td><td>yr*trt~yr*cov</td><td>pls</td></tr><tr><td><a href="verbyla.lupin.html">verbyla.lupin</a></td><td>9</td><td>8</td><td>3</td><td>2</td><td>7</td><td>rsm1, xy, density</td><td>asreml</td></tr><tr><td><a href="vold.longterm.html">vold.longterm</a></td><td></td><td></td><td></td><td>19</td><td>4</td><td>rsm1</td><td>nls,nlme</td></tr><tr><td><a href="vsn.lupin3.html">vsn.lupin3</a></td><td>336</td><td>3</td><td></td><td></td><td></td><td>xy</td><td>asreml</td></tr><tr><td><a href="wedderburn.barley.html">wedderburn.barley</a></td><td>10</td><td>9</td><td></td><td></td><td></td><td>percent</td><td>glm/gnm</td></tr><tr><td><a href="weiss.incblock.html">weiss.incblock</a></td><td>31</td><td></td><td>6</td><td></td><td></td><td>xy,incblock</td><td>asreml</td></tr><tr><td><a href="weiss.lattice.html">weiss.lattice</a></td><td>49</td><td></td><td>4</td><td></td><td></td><td>xy,lattice</td><td>lm,asreml</td></tr><tr><td><a href="welch.bermudagrass.html">welch.bermudagrass</a></td><td></td><td></td><td></td><td></td><td>4,4,4</td><td>rsm3, factorial</td><td>lm, jags</td></tr><tr><td><a href="wheatley.carrot.html">wheatley.carrot</a></td><td></td><td></td><td>3</td><td></td><td>11</td><td></td><td>glm-binomial</td></tr><tr><td><a href="yan.winterwheat.html">yan.winterwheat</a></td><td>18</td><td>9</td><td></td><td></td><td></td><td></td><td>gge,biplot</td></tr><tr><td><a href="yang.barley.html">yang.barley</a></td><td>6</td><td>18</td><td></td><td></td><td></td><td></td><td>biplot</td></tr><tr><td><a href="yates.missing.html">yates.missing</a></td><td></td><td></td><td>10</td><td></td><td>3^2 = 3,3</td><td>factorial</td><td>lm, pca</td></tr><tr><td><a href="yates.oats.html">yates.oats</a></td><td>3</td><td></td><td>6</td><td></td><td></td><td>xy,split,nitro</td><td>lmer</td></tr></table><p><b>Time series</b></p><table class="table table"><tr><td>name</td><td>years</td><td>trt</td><td>other</td><td>model</td></tr><tr><td><a href="byers.apple.html">byers.apple</a></td><td></td><td></td><td></td><td>lme</td></tr><tr><td><a href="broadbalk.wheat.html">broadbalk.wheat</a></td><td>74</td><td>17</td><td></td><td></td></tr><tr><td><a href="hessling.argentina.html">hessling.argentina</a></td><td>30</td><td></td><td>temp,precip</td><td></td></tr><tr><td><a href="kreusler.maize.html">kreusler.maize</a></td><td>4</td><td>5</td><td>plant growth</td><td></td></tr><tr><td><a href="lambert.soiltemp.html">lambert.soiltemp</a></td><td>1</td><td>7</td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.barley</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.corn</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.cotton</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.hay</a></td><td>104</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.sorghum</a></td><td>93</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.wheat</a></td><td>146</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.rice</a></td><td>117</td><td></td><td></td><td></td></tr><tr><td><a href="nass.corn.html">nass.soybean</a></td><td>88</td><td></td><td></td><td></td></tr><tr><td><a href="walsh.cottonprice.html">walsh.cottonprice</a></td><td>34</td><td></td><td></td><td>cor</td></tr></table><p><b>Other</b></p>
 <table class="table table"><tr><td>name</td><td>model</td></tr><tr><td><a href="cate.potassium.html">cate.potassium</a></td><td>cate-nelson</td></tr><tr><td><a href="cleveland.soil.html">cleveland.soil</a></td><td>loess 2D</td></tr><tr><td><a href="harrison.priors.html">harrison.priors</a></td><td>nls, prior</td></tr><tr><td><a href="nebraska.farmincome.html">nebraska.farmincome</a></td><td>choropleth</td></tr><tr><td><a href="pearl.kernels.html">pearl.kernels</a></td><td>chisq</td></tr><tr><td><a href="stirret.borers.html">stirret.borers</a></td><td>lm, 4 trt</td></tr><tr><td><a href="turner.herbicide.html">turner.herbicide</a></td><td>glm, 4 trt</td></tr><tr><td><a href="usgs.herbicides.html">usgs.herbicides</a></td><td>non-detect</td></tr><tr><td><a href="wallace.iowaland.html">wallace.iowaland</a></td><td>lm, choropleth</td></tr><tr><td><a href="waynick.soil.html">waynick.soil</a></td><td>spatial, nitro/carbon</td></tr></table><p>Summaries:</p>
 <p>Diallel experiments:</p>
 <table class="table table"><tr><td>name</td><td>gen</td><td>loc</td><td>reps</td><td>trt</td><td>model</td></tr><tr><td><a href="bond.diallel.html">bond.diallel</a></td><td>6*6</td><td></td><td></td><td>9</td><td></td></tr><tr><td><a href="butron.maize.html">butron.maize</a></td><td>49</td><td>3</td><td></td><td></td><td>biplot,asreml</td></tr><tr><td><a href="grover.diallel.html">grover.diallel</a></td><td></td><td></td><td>4</td><td>6*6</td><td>lmDiallel</td></tr><tr><td><a href="hayman.tobacco.html">hayman.tobacco</a></td><td>8</td><td></td><td>2</td><td></td><td>asreml</td></tr><tr><td><a href="ilri.sheep.html">ilri.sheep</a></td><td>4</td><td>6</td><td></td><td></td><td></td></tr><tr><td><a href="lonnquist.maize.html">lonnquist.maize</a></td><td>11</td><td></td><td></td><td></td><td>asreml</td></tr></table><p>Factorial experiments:</p>
@@ -102,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of cereal with lodging data</h1>
-      
+
       <div class="d-none name"><code>allcroft.lodging.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>percent lodged</p></dd>
 
-  
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 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -81,13 +67,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>D. J. Allcroft and C. A. Glasbey, 2003.
   Analysis of crop lodging using a latent variable model.
-  Journal of Agricultural Science, 140, 383--393.
+  Journal of Agricultural Science, 140, 383–393.
   https://doi.org/10.1017/S0021859603003332</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">allcroft.lodging</span><span class="op">)</span></span></span>
@@ -113,10 +99,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/tapply.html" class="external-link">tapply</a></span><span class="op">(</span><span class="va">preds</span><span class="op">$</span><span class="va">pred</span>, <span class="va">preds</span><span class="op">$</span><span class="va">gen</span>, <span class="va">mean</span><span class="op">)</span>,<span class="fl">2</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/tapply.html" class="external-link">tapply</a></span><span class="op">(</span><span class="va">preds</span><span class="op">$</span><span class="va">pred</span>, <span class="va">preds</span><span class="op">$</span><span class="va">env</span>, <span class="va">mean</span><span class="op">)</span>,<span class="fl">2</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -125,14 +111,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>For the 34 sheep sires, the number of lambs in each of 5 foot shape classes.</h1>
-      
+
       <div class="d-none name"><code>alwan.lamb.Rd</code></div>
     </div>
 
@@ -98,7 +84,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>b3</code></dt>
 <dd><p>numeric contrast for breeds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -130,7 +116,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">alwan.lamb</span><span class="op">)</span></span></span>
@@ -217,10 +203,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/detach.html" class="external-link">detach</a></span><span class="op">(</span><span class="st">"package:ordinal"</span><span class="op">)</span> <span class="co"># to avoid VarCorr clash with lme4</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -229,14 +215,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/ansari.wheat.uniformity.html b/reference/ansari.wheat.uniformity.html
index bd3c43c4..b77e0386 100644
--- a/reference/ansari.wheat.uniformity.html
+++ b/reference/ansari.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of wheat in India in 1940."><title>Uniformity trial of wheat — ansari.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of wheat — ansari.wheat.uniformity"><meta property="og:description" content="Uniformity trial of wheat in India in 1940."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of wheat — ansari.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of wheat — ansari.wheat.uniformity"><meta name="description" content="Uniformity trial of wheat in India in 1940."><meta property="og:description" content="Uniformity trial of wheat in India in 1940."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>ansari.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield of grain per plot, in half-ounces</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>An experiment was conducted at the Government Research Farm, Raya
   (Muttra District), during the rainy season of 1939-40.</p>
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ansari.wheat.uniformity</span><span class="op">)</span></span></span>
@@ -125,10 +111,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">216</span><span class="op">/</span><span class="fl">160</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"ansari.wheat.uniformity"</span><span class="op">)</span> </span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/arankacami.groundnut.uniformity.html b/reference/arankacami.groundnut.uniformity.html
index 06d83031..0b635725 100644
--- a/reference/arankacami.groundnut.uniformity.html
+++ b/reference/arankacami.groundnut.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of groundnut</h1>
-      
+
       <div class="d-none name"><code>arankacami.groundnut.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>The year of the experiment is unknown, but before 1995.</p>  
+    <p>The year of the experiment is unknown, but before 1995.</p>
 <p>Basic plot size is 0.75 m (rows) x  4 m (columns).</p>
     </div>
     <div class="section level2">
@@ -96,20 +82,20 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">arankacami.groundnut.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">arankacami.groundnut.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/desplot/" class="external-link">desplot</a></span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">12</span><span class="op">*</span><span class="fl">.75</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">4</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"arankacami.groundnut.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -118,14 +104,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 7df0a502..20b968ac 100644
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+++ b/reference/archbold.apple.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Split-split plot experiment of apple trees with different spacing,
-  root stock, and cultivars."><title>Split-split plot experiment of apple trees — archbold.apple • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-split plot experiment of apple trees — archbold.apple"><meta property="og:description" content="Split-split plot experiment of apple trees with different spacing,
-  root stock, and cultivars."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  root stock, and cultivars."><meta property="og:description" content="Split-split plot experiment of apple trees with different spacing,
+  root stock, and cultivars."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-split plot experiment of apple trees</h1>
-      
+
       <div class="d-none name"><code>archbold.apple.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>trt</code></dt>
 <dd><p>treatment code</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -119,7 +105,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">archbold.apple</span><span class="op">)</span></span></span>
@@ -134,7 +120,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># shows the relative position of the plots and treatments. Note that the</span></span></span>
 <span class="r-in"><span><span class="co"># 'spacing' treatments are not contiguous in some reps.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">spacing</span><span class="op">~</span><span class="va">row</span><span class="op">*</span><span class="va">pos</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">spacing</span><span class="op">~</span><span class="va">row</span><span class="op">*</span><span class="va">pos</span>,</span></span>
 <span class="r-in"><span>        col<span class="op">=</span><span class="va">stock</span>, cex<span class="op">=</span><span class="fl">1</span>, num<span class="op">=</span><span class="va">gen</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"archbold.apple"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -149,10 +135,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##         rep (Intercept) &lt;NA&gt;  197.3 14.05</span></span></span>
 <span class="r-in"><span><span class="co">##    Residual        &lt;NA&gt; &lt;NA&gt; 1015   31.86</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -161,14 +147,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/ars.earlywhitecorn96.html b/reference/ars.earlywhitecorn96.html
index ea2761f3..67a508c4 100644
--- a/reference/ars.earlywhitecorn96.html
+++ b/reference/ars.earlywhitecorn96.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of early white food corn for 60 white hybrids."><title>Multi-environment trial of early white food corn — ars.earlywhitecorn96 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of early white food corn — ars.earlywhitecorn96"><meta property="og:description" content="Multi-environment trial of early white food corn for 60 white hybrids."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of early white food corn — ars.earlywhitecorn96 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of early white food corn — ars.earlywhitecorn96"><meta name="description" content="Multi-environment trial of early white food corn for 60 white hybrids."><meta property="og:description" content="Multi-environment trial of early white food corn for 60 white hybrids."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of early white food corn</h1>
-      
+
       <div class="d-none name"><code>ars.earlywhitecorn96.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>moisture</code></dt>
 <dd><p>moisture, percent</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -112,7 +98,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -133,10 +119,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">m1</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -145,14 +131,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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+
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diff --git a/reference/australia.soybean.html b/reference/australia.soybean.html
index 425e3be4..5159a4f5 100644
--- a/reference/australia.soybean.html
+++ b/reference/australia.soybean.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
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+  Year x Loc x Gen x Trait."><meta property="og:description" content="Yield and other traits of 58 varieties of soybeans, grown in four
   locations across two years in Australia.  This is four-way data of
-  Year x Loc x Gen x Trait."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of soybean in Australia</h1>
-      
+
       <div class="d-none name"><code>australia.soybean.Rd</code></div>
     </div>
 
@@ -98,11 +84,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>oil</code></dt>
 <dd><p>oil (percentage)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Measurement are available from four locations in Queensland, Australia in two
   consecutive years 1970, 1971.</p>
@@ -130,11 +116,11 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>K E Basford (1982). The Use of Multidimensional Scaling in Analysing
   Multi-Attribute Genotype Response Across Environments,
-  Aust J Agric Res, 33, 473--480.</p>
+  Aust J Agric Res, 33, 473–480.</p>
 <p>Kroonenberg, P. M., &amp; Basford, K. E. B. (1989). An investigation of
   multi-attribute genotype response across environments using three-mode
   principal component analysis.
-  Euphytica, 44, 109--123.</p>
+  Euphytica, 44, 109–123.</p>
 <p>Marcin Kozak (2010).
   Use of parallel coordinate plots in multi-response selection of
   interesting genotypes.
@@ -143,7 +129,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">australia.soybean</span><span class="op">)</span></span></span>
@@ -177,10 +163,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu">parallelplot</span><span class="op">(</span> <span class="op">~</span> <span class="va">dat3</span><span class="op">[</span>,<span class="fl">1</span><span class="op">:</span><span class="fl">6</span><span class="op">]</span><span class="op">|</span><span class="va">dat3</span><span class="op">$</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>                 as.table<span class="op">=</span><span class="cn">TRUE</span>, horiz<span class="op">=</span><span class="cn">FALSE</span>, lwd<span class="op">=</span><span class="fl">2</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -189,14 +175,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/bachmaier.nitrogen.html b/reference/bachmaier.nitrogen.html
index bf899250..2836b4be 100644
--- a/reference/bachmaier.nitrogen.html
+++ b/reference/bachmaier.nitrogen.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
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-      
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       <div class="d-none name"><code>bachmaier.nitrogen.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>zone</code></dt>
 <dd><p>fertility zone</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -154,7 +140,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
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 </div>
 
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diff --git a/reference/bailey.cotton.uniformity.html b/reference/bailey.cotton.uniformity.html
index a008a184..c24ec439 100644
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+++ b/reference/bailey.cotton.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton in Egypt</h1>
-      
+
       <div class="d-none name"><code>bailey.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -80,30 +66,30 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>loc</code></dt>
 <dd><p>location</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Two pickings were taken. The weights of seeds cotton for first and
   second pickings were totaled. Yields were measured in "rotl", which
-  "are on the order of a pound".</p>  
-<p>Layout at Sakha and Gemmeiza (page 9): 
+  "are on the order of a pound".</p>
+<p>Layout at Sakha and Gemmeiza (page 9):
   Total area 4.86 feddans.
   Each bed was 20 ridges of 7 m each, total dimension 15 m x 7 m.
   Add 1.5m for irrigation channel.
   Center-to-center distances 15m x 8.5m.</p>
 <p>Charts 3 &amp; 5 show yield of "Selected Average Plants". These data are
-  not used here.</p>  
-<p>Chart 1: Sakha 1921, 8 x 20. Bed yield in rotls. Length 20 ridges * .75 m = 15m. Width = 7m.</p>  
+  not used here.</p>
+<p>Chart 1: Sakha 1921, 8 x 20. Bed yield in rotls. Length 20 ridges * .75 m = 15m. Width = 7m.</p>
 <p>Chart 2: Gemmeiza 1921, 8 x 20.</p>
-<p>Chart 3: Total S.A.P. yield in grams. (not used here)</p>  
+<p>Chart 3: Total S.A.P. yield in grams. (not used here)</p>
 <p>Chart 4: Gemmeiza 1922, 8 x 20.</p>
-<p>Chart 5: Total S.A.P. yield in grams. (not used here)</p>  
-<p>Layout at Giza (page 10)</p>  
+<p>Chart 5: Total S.A.P. yield in grams. (not used here)</p>
+<p>Layout at Giza (page 10)</p>
 <p>Beds were 8 ridges of 7 m each, total dimension 6m x 7m.
   Add 1.5m for irrigation channel.
   Center-to-center distance 6m x 8.5m</p>
-<p>Chart 6 - Giza 1921, 14 x 11 = 154 plots</p>  
+<p>Chart 6 - Giza 1921, 14 x 11 = 154 plots</p>
 <p>Chart 7 - Giza 1923, 20 x 8 = 160 plots</p>
 <p>Bailey said the results at Giza 1921 were not suitable for reliability
   experiments.</p>
@@ -123,7 +109,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bailey.cotton.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">bailey.cotton.uniformity</span></span></span>
@@ -134,28 +120,28 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># dat </span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">env</span>, main<span class="op">=</span><span class="st">"bailey.cotton.uniformity"</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">env</span>, main<span class="op">=</span><span class="st">"bailey.cotton.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># The yield scales are quite different at each loc, and the dimensions</span></span></span>
 <span class="r-in"><span>  <span class="co"># are different, so plot each location separately.</span></span></span>
 <span class="r-in"><span>  <span class="co"># Note: Bailey does not say if plots are 7x15 meters, or 15x7 meters.</span></span></span>
 <span class="r-in"><span>  <span class="co"># The choices here seem most likely in our opinion.</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1921 Sakha"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1921 Sakha"</span>,</span></span>
 <span class="r-in"><span>    main<span class="op">=</span><span class="st">"1921 Sakha"</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">8.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">15</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1921 Gemmeiza"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1921 Gemmeiza"</span>,</span></span>
 <span class="r-in"><span>    main<span class="op">=</span><span class="st">"1921 Gemmeiza"</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">8.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">15</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1922 Gemmeiza"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1922 Gemmeiza"</span>,</span></span>
 <span class="r-in"><span>    main<span class="op">=</span><span class="st">"1922 Gemmeiza"</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">8.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">15</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1921 Giza"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1921 Giza"</span>,</span></span>
 <span class="r-in"><span>    main<span class="op">=</span><span class="st">"1921 Giza"</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">11</span><span class="op">*</span><span class="fl">6</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">14</span><span class="op">*</span><span class="fl">8.5</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># 1923 Giza has alternately hi/lo yield rows. Not noticed by Bailey.</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1923 Giza"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">env</span><span class="op">==</span><span class="st">"1923 Giza"</span>,</span></span>
 <span class="r-in"><span>    main<span class="op">=</span><span class="st">"1923 Giza"</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">6</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">8.5</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index c53d4fce..0cb65316 100644
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+++ b/reference/baker.barley.uniformity.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of barley, 10 years on same ground</h1>
-      
+
       <div class="d-none name"><code>baker.barley.uniformity.Rd</code></div>
     </div>
 
@@ -73,17 +59,17 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds/acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Ten years of uniformity trials were sown on the same ground.  Baker
   (1952) shows a map of the field, in which gravel subsoil extended from
   the upper right corner diagonally lower-center.
   This part of the field had lower yields on the 10-year average map.</p>
-<p>Plot 41 in 1928 is missing.</p>  
+<p>Plot 41 in 1928 is missing.</p>
 <p>Field width: 19 plots = 827 ft</p>
 <p>Field length: 3 plots * 161 ft + 2 alleys * 15 feet = 513 ft</p>
     </div>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -108,11 +94,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aggregate.html" class="external-link">aggregate</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">col</span>, data<span class="op">=</span><span class="va">dat</span>, FUN<span class="op">=</span><span class="va">mean</span>, na.rm<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>        aspect <span class="op">=</span> <span class="fl">513</span><span class="op">/</span><span class="fl">827</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"baker.barley.uniformity - heatmaps by year"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect <span class="op">=</span> <span class="fl">513</span><span class="op">/</span><span class="fl">827</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"baker.barley.uniformity - heatmap of 10-year average"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># Note low yield in upper right, slanting to left a bit due to sandy soil</span></span></span>
@@ -129,10 +115,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># mat &lt;- acast(dat, row+col~year)</span></span></span>
 <span class="r-in"><span><span class="co"># round(cor(mat, use='pair'),2)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/baker.strawberry.uniformity.html b/reference/baker.strawberry.uniformity.html
index 6f3d9a6b..73550da2 100644
--- a/reference/baker.strawberry.uniformity.html
+++ b/reference/baker.strawberry.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of strawberry"><title>Uniformity trial of strawberry — baker.strawberry.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of strawberry — baker.strawberry.uniformity"><meta property="og:description" content="Uniformity trial of strawberry"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of strawberry — baker.strawberry.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of strawberry — baker.strawberry.uniformity"><meta name="description" content="Uniformity trial of strawberry"><meta property="og:description" content="Uniformity trial of strawberry"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of strawberry</h1>
-      
+
       <div class="d-none name"><code>baker.strawberry.uniformity.Rd</code></div>
     </div>
 
@@ -77,12 +63,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plant/plot in grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Trial T1:</p>
 <p>200 plants were grown in two double-row beds at Davis,
   California, in 1946. The rows were 1 foot apart. The beds were 42 inches
@@ -117,7 +103,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -130,17 +116,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu">summarize</span><span class="op">(</span><span class="va">dat</span>, mn<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">yield</span><span class="op">)</span>, cv<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">yield</span><span class="op">)</span><span class="op">/</span><span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">yield</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">trial</span><span class="op">==</span><span class="st">"T1"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">trial</span><span class="op">==</span><span class="st">"T1"</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">500</span><span class="op">/</span><span class="fl">66</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"baker.strawberry.uniformity - trial T1"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">trial</span><span class="op">==</span><span class="st">"T2"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">trial</span><span class="op">==</span><span class="st">"T2"</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">500</span><span class="op">/</span><span class="fl">300</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"baker.strawberry.uniformity - trial T2"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +135,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/baker.wheat.uniformity.html b/reference/baker.wheat.uniformity.html
index 2a26e396..02856bb0 100644
--- a/reference/baker.wheat.uniformity.html
+++ b/reference/baker.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>baker.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (grams)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Data was collected in 1939-1940.  The trial consists of sixteen 40 ft. x
 40 ft. blocks subdivided into nine plots each. The data were secured in
 1939-1940 from White Federation wheat. The design of the experiment was
@@ -107,21 +93,21 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">baker.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">baker.wheat.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"baker.wheat.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -130,14 +116,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/bancroft.peanut.uniformity.html b/reference/bancroft.peanut.uniformity.html
index 8d6da205..cf92230b 100644
--- a/reference/bancroft.peanut.uniformity.html
+++ b/reference/bancroft.peanut.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of peanuts</h1>
-      
+
       <div class="d-none name"><code>bancroft.peanut.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bancroft.peanut.uniformity</span><span class="op">)</span></span></span>
@@ -123,14 +109,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## 2 B2     2.05</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">18</span><span class="op">*</span><span class="fl">3</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">16.66</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"bancroft.peanut.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/barrero.maize.html b/reference/barrero.maize.html
index 243f1b24..d8f8db42 100644
--- a/reference/barrero.maize.html
+++ b/reference/barrero.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of maize in Texas."><title>Multi-environment trial of maize in Texas. — barrero.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize in Texas. — barrero.maize"><meta property="og:description" content="Multi-environment trial of maize in Texas."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of maize in Texas. — barrero.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize in Texas. — barrero.maize"><meta name="description" content="Multi-environment trial of maize in Texas."><meta property="og:description" content="Multi-environment trial of maize in Texas."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize in Texas.</h1>
-      
+
       <div class="d-none name"><code>barrero.maize.Rd</code></div>
     </div>
 
@@ -107,17 +93,17 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, Mt/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>This is a large (14500 records), multi-year, multi-location, 10-trait
-  dataset from the Texas AgriLife Corn Performance Trials.</p>  
+  dataset from the Texas AgriLife Corn Performance Trials.</p>
 <p>These data are from 2-row plots approximately 36in wide by 25 feet long.</p>
 <p>Barrero et al. used this data to estimate the genetic gain in maize
-  hybrids over a 10-year period of time.</p>  
+  hybrids over a 10-year period of time.</p>
 <p>Used with permission of Seth Murray.</p>
     </div>
     <div class="section level2">
@@ -134,7 +120,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">barrero.maize</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">barrero.maize</span></span></span>
@@ -160,7 +146,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                 workspace<span class="op">=</span><span class="st">"500mb"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>    <span class="co"># Variance components for yield match Barrero table 6.</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span><span class="op">[</span><span class="fl">1</span><span class="op">:</span><span class="fl">5</span>,<span class="op">]</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span><span class="op">[</span><span class="fl">1</span><span class="op">:</span><span class="fl">5</span>,<span class="op">]</span></span></span>
 <span class="r-in"><span>    <span class="co">##        effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">## rep:loc:yearf   0.111     0.01092    10       P 0  </span></span></span>
 <span class="r-in"><span>    <span class="co">##           gen   0.505     0.03988    13       P 0  </span></span></span>
@@ -172,10 +158,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">##   Min. 1st Qu.  Median    Mean 3rd Qu.    Max. </span></span></span>
 <span class="r-in"><span>    <span class="co">## 0.1286  0.3577  0.5571  0.8330  1.0322  2.9867 </span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -184,14 +170,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/batchelor.uniformity.html b/reference/batchelor.uniformity.html
index 144b6615..3460d0e6 100644
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+++ b/reference/batchelor.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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+  California &amp;amp; Utah, 1915-1918."><meta property="og:description" content="Uniformity trials of apples, lemons, oranges, and walnuts, in
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of apples, lemons, oranges, and walnuts</h1>
-      
+
       <div class="d-none name"><code>batchelor.uniformity.Rd</code></div>
     </div>
 
@@ -73,16 +59,16 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per tree in pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>A few of the trees affected by disease were eliminated and the yield
   was replaced by the average of the eight surrounding trees.</p>
 <p>The following details are from Batchelor (1918).</p>
-  
+
 <p><b>Jonathan Apples</b></p>
 <p>"The apple records were obtained from a 10-year old
   Jonathan apple orchard located at Providence, Utah. The surface soil
@@ -95,7 +81,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   true for this field as well.  Yields may be from 1916.</p>
 <p>Field width: 8 trees * 16 feet = 128 feet</p>
 <p>Field length: 28 rows * 30 feet = 840 feet</p>
-  
+
 <p><b>Eureka Lemon</b></p>
 <p>The lemon (Citrus limonia) tree yields were obtained from a grove of
   364 23-year-old trees, located at Upland, California. The records
@@ -108,7 +94,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   yet a field observation gives one the impression that the grove as a
   whole is remarkably uniform.</p>
 <p>Field width: 14 trees * 24 feet = 336 feet</p>
-<p>Field length: 26 trees * 24 feet = 624 feet</p>  
+<p>Field length: 26 trees * 24 feet = 624 feet</p>
 
 <p><b>Navel 1 at Arlington</b></p>
 <p>These records were of the 1915-16 yields of one thousand 24-year-old
@@ -122,7 +108,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   tree to tree also occur, the cause of which is not evident. These
   variations, which are present in every orchard, bring uncertainty into
   the results offield experiments.</p>
-<p>Field width: 20 trees * 22 feet = 440 feet</p>  
+<p>Field width: 20 trees * 22 feet = 440 feet</p>
 <p>Field length: 50 trees * 22 feet = 1100 feet</p>
 
 <p><b>Navel 2 at Antelope</b></p>
@@ -133,13 +119,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   greater than a comparison of the individual tree production
   substantiates.</p>
 <p>Field width: 15 trees * 22 feet = 330 feet</p>
-<p>Field length: 33 trees * 22 feet = 726 feet</p>  
+<p>Field length: 33 trees * 22 feet = 726 feet</p>
 
 <p><b>Valencia Orange</b></p>
 <p>The Valencia orange grove is composed of 240 15-year-old trees,
   planted 21 feet 6 inches by 22 feet 6 inches, located at Villa Park,
   California. The yields were obtained in 1916.</p>
-<p>Field width: 12 rows * 22 feet = 264 feet</p>  
+<p>Field width: 12 rows * 22 feet = 264 feet</p>
 <p>Field length: 20 rows * 22 feet = 440 feet</p>
 
 <p><b>Walnut</b></p>
@@ -158,7 +144,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>L. D. Batchelor and H. S. Reed. (1918).
   Relation of the variability of yields of fruit trees to the accuracy
-  of field trials. <em>J. Agric. Res</em>, 12, 245--283.
+  of field trials. <em>J. Agric. Res</em>, 12, 245–283.
   https://books.google.com/books?id=Lil6AAAAMAAJ&amp;lr&amp;pg=PA245</p>
     </div>
     <div class="section level2">
@@ -166,57 +152,57 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   <em>Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science</em>, 462, 2119--2143.
+    Engineering Science</em>, 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Apple</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">batchelor.apple.uniformity</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.apple.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.apple.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">840</span><span class="op">/</span><span class="fl">128</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"batchelor.apple.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Lemon</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">batchelor.lemon.uniformity</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.lemon.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.lemon.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">624</span><span class="op">/</span><span class="fl">336</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"batchelor.lemon.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Navel1 (Arlington)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">batchelor.navel1.uniformity</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.navel1.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.navel1.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1100</span><span class="op">/</span><span class="fl">440</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"batchelor.navel1.uniformity - Arlington"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Navel2 (Antelope)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">batchelor.navel2.uniformity</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.navel2.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.navel2.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">726</span><span class="op">/</span><span class="fl">330</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"batchelor.navel2.uniformity - Antelope"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Valencia</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">batchelor.valencia.uniformity</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.valencia.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.valencia.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">440</span><span class="op">/</span><span class="fl">264</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"batchelor.valencia.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Walnut</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">batchelor.walnut.uniformity</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.walnut.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">batchelor.walnut.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1600</span><span class="op">/</span><span class="fl">500</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"batchelor.walnut.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -225,14 +211,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/battese.survey.html b/reference/battese.survey.html
index 90b5b11e..86c8e93a 100644
--- a/reference/battese.survey.html
+++ b/reference/battese.survey.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Survey and satellite data for corn and soy areas in Iowa"><title>Survey and satellite data for corn and soy areas in Iowa — battese.survey • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Survey and satellite data for corn and soy areas in Iowa — battese.survey"><meta property="og:description" content="Survey and satellite data for corn and soy areas in Iowa"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Survey and satellite data for corn and soy areas in Iowa — battese.survey • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Survey and satellite data for corn and soy areas in Iowa — battese.survey"><meta name="description" content="Survey and satellite data for corn and soy areas in Iowa"><meta property="og:description" content="Survey and satellite data for corn and soy areas in Iowa"><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Survey and satellite data for corn and soy areas in Iowa</h1>
-      
+
       <div class="d-none name"><code>battese.survey.Rd</code></div>
     </div>
 
@@ -92,7 +78,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>soymean</code></dt>
 <dd><p>county mean of soy pixels per segment</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -102,7 +88,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   hectares).  The number of pixels of that were classified as corn and
   soybeans came from Landsat images obtained in Aug/Sep 1978. Each pixel
   represents approximately 0.45 hectares.</p>
-<p>Data originally compiled by USDA.</p>  
+<p>Data originally compiled by USDA.</p>
 <p>This data is also available in R packages: 'rsae::landsat' and 'JoSAE::landsat'.</p>
     </div>
     <div class="section level2">
@@ -124,7 +110,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">battese.survey</span><span class="op">)</span></span></span>
@@ -193,10 +179,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##   county (Intercept) &lt;NA&gt; 247.5 15.73</span></span></span>
 <span class="r-in"><span><span class="co">## Residual        &lt;NA&gt; &lt;NA&gt; 190.5 13.8 </span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -205,14 +191,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/beall.webworms.html b/reference/beall.webworms.html
index 21c6cf86..13256ad0 100644
--- a/reference/beall.webworms.html
+++ b/reference/beall.webworms.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Counts of webworms in a beet field, with insecticide treatments.</h1>
-      
+
       <div class="d-none name"><code>beall.webworms.Rd</code></div>
     </div>
 
@@ -86,11 +72,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>lead</code></dt>
 <dd><p>lead treatment yes/no</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The beet webworm lays egg masses as small as 1 egg, seldom exceeding 5
   eggs. The larvae can move freely, but usually mature on the plant on
@@ -122,7 +108,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">beall.webworms</span><span class="op">)</span></span></span>
@@ -138,7 +124,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Visualize Beall table 6.  Block effects may exist, but barely.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">grays</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"white"</span>,<span class="st">"#252525"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">y</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">y</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        col.regions<span class="op">=</span><span class="fu">grays</span><span class="op">(</span><span class="fl">10</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        at<span class="op">=</span><span class="fl">0</span><span class="op">:</span><span class="fl">10</span><span class="op">-</span><span class="fl">0.5</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">trt</span>, num<span class="op">=</span><span class="va">trt</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># aspect unknown</span></span></span>
@@ -165,10 +151,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># logLik(m3) # -1475.999 </span></span></span>
 <span class="r-in"><span><span class="co"># # Kosma logLik(m3)=-1717 seems too big. Typo? Different model?</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -177,14 +163,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/beaven.barley.html b/reference/beaven.barley.html
index 0daa69c2..69774cc0 100644
--- a/reference/beaven.barley.html
+++ b/reference/beaven.barley.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yields of 8 barley varieties in 1913."><title>Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley"><meta property="og:description" content="Yields of 8 barley varieties in 1913."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Yields of 8 barley varieties in 1913 as used by Student.</h1>
-      
+
       <div class="d-none name"><code>beaven.barley.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (grams)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Eight races of barley were grown on a regular pattern of plots.</p>
 <p>These data were prepared from Richey (1926) because the text was
@@ -93,16 +79,16 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
+
 
 <p>Student. (1923).
   On testing varieties of cereals.
-  <em>Biometrika</em>, 271-293.</p>  
+  <em>Biometrika</em>, 271-293.</p>
 <p>https://doi.org/10.1093/biomet/15.3-4.271</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>Frederick D. Richey (1926).
   The moving average as a basis for measuring correlated
@@ -112,7 +98,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -126,13 +112,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Compare to Student 1923, diagram I,II</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">15</span><span class="op">/</span><span class="fl">96</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"beaven.barley - variety trial"</span>, text<span class="op">=</span><span class="va">gen</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index b5f8305e..a6a0a33c 100644
--- a/reference/becker.chicken.html
+++ b/reference/becker.chicken.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Mating crosses of chickens</h1>
-      
+
       <div class="d-none name"><code>becker.chicken.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>weight (g) at 8 weeks</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>From a large flock White Rock chickens, five male sires were chosen
   and mated to each of three female dams, producing 3 female progeny.
   The data are body weights at eight weeks of age.</p>
@@ -98,7 +84,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">becker.chicken</span><span class="op">)</span></span></span>
@@ -131,10 +117,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># 4*s2m/vp # .42 male heritability</span></span></span>
 <span class="r-in"><span>  <span class="co">#4*s2f/vp # .59 female heritability</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -143,14 +129,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/belamkar.augmented.html b/reference/belamkar.augmented.html
index fd40c029..87a6bca9 100644
--- a/reference/belamkar.augmented.html
+++ b/reference/belamkar.augmented.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of wheat in Nebraska with Augmented design"><title>Multi-environment trial of wheat with Augmented design — belamkar.augmented • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat with Augmented design — belamkar.augmented"><meta property="og:description" content="Multi-environment trial of wheat in Nebraska with Augmented design"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of wheat with Augmented design — belamkar.augmented • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat with Augmented design — belamkar.augmented"><meta name="description" content="Multi-environment trial of wheat in Nebraska with Augmented design"><meta property="og:description" content="Multi-environment trial of wheat in Nebraska with Augmented design"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat with Augmented design</h1>
-      
+
       <div class="d-none name"><code>belamkar.augmented.Rd</code></div>
     </div>
 
@@ -92,7 +78,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, bu/ac</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -121,16 +107,16 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">belamkar.augmented</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">belamkar.augmented</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>, out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">iblock</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>, out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">iblock</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Experiment design showing check placement</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">gen_check</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen_check</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen_check</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>, out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">iblock</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen_check</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>, out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">iblock</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"belamkar.augmented"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Belamkar supplement S3 has R code for analysis</span></span></span>
@@ -151,10 +137,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">p1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/predict.html" class="external-link">predict</a></span><span class="op">(</span><span class="va">m1</span>, classify<span class="op">=</span><span class="st">"gen"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">p1</span><span class="op">$</span><span class="va">pvals</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -163,14 +149,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/besag.bayesian.html b/reference/besag.bayesian.html
index e666be60..58a6ba8d 100644
--- a/reference/besag.bayesian.html
+++ b/reference/besag.bayesian.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of spring barley in United Kingdom</h1>
-      
+
       <div class="d-none name"><code>besag.bayesian.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>gen</code></dt>
 <dd><p>variety/genotype</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -96,7 +82,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">besag.bayesian</span><span class="op">)</span></span></span>
@@ -122,7 +108,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>    <span class="co"># Visualize trends, similar to Besag figure 2.</span></span></span>
 <span class="r-in"><span>    <span class="co"># Need 'as.vector' because asreml uses a named vector</span></span></span>
@@ -137,10 +123,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">res</span> <span class="op">~</span> <span class="va">rrow</span><span class="op">|</span><span class="va">col</span>, <span class="va">dat</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">3</span><span class="op">)</span>, type<span class="op">=</span><span class="st">'s'</span>,</span></span>
 <span class="r-in"><span>           main<span class="op">=</span><span class="st">"besag.bayesian - Residuals"</span>, ylim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">4</span>,<span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span> </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># } </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +135,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index d5f1aa9b..8230fb1a 100644
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Competition experiment in beans with height measurements"><title>Competition experiment in beans with height measurements — besag.beans • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Competition experiment in beans with height measurements — besag.beans"><meta property="og:description" content="Competition experiment in beans with height measurements"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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       <img src="../logo.png" class="logo" alt=""><h1>Competition experiment in beans with height measurements</h1>
-      
+
       <div class="d-none name"><code>besag.beans.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -112,12 +98,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Kempton, RA and Lockwood, G. (1984).
   Inter-plot competition in variety trials of field beans (Vicia faba L.).
-  <em>The Journal of Agricultural Science</em>, 103, 293--302.</p>
+  <em>The Journal of Agricultural Science</em>, 103, 293–302.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -125,7 +111,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat</span> <span class="op">=</span> <span class="va">besag.beans</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">12</span><span class="op">/</span><span class="fl">19</span>, out1<span class="op">=</span><span class="va">row</span>, out2<span class="op">=</span><span class="va">rep</span>, num<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"besag.beans"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -166,10 +152,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="op">-</span><span class="fl">1</span> <span class="op">+</span> <span class="va">gen</span> <span class="op">+</span> <span class="va">blkrep</span> <span class="op">+</span> <span class="va">cov</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/coef.html" class="external-link">coef</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span> <span class="co"># slope 'cov' = -.72, while Kempton says -.79</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -178,14 +164,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index e4de900b..b1845f4c 100644
--- a/reference/besag.checks.html
+++ b/reference/besag.checks.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Check variety yields in winter wheat."><title>Check variety yields in winter wheat. — besag.checks • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Check variety yields in winter wheat. — besag.checks"><meta property="og:description" content="Check variety yields in winter wheat."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <div class="d-none name"><code>besag.checks.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>gen</code></dt>
 <dd><p>genotype/variety</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -87,8 +73,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   Breeding Institute, Cambridge, in 1980. These data are the 'checks'
   genotypes in a larger variety trial.</p>
 <p>There is a column of checks, then five columns of new varieties.  Repeat.</p>
-<p>Plot dimensions approx 1.5 by 4.5 metres</p>  
-<p>Field length: 52 rows * 4.5 m = 234 m</p>  
+<p>Plot dimensions approx 1.5 by 4.5 metres</p>
+<p>Field length: 52 rows * 4.5 m = 234 m</p>
 <p>Field width: 31 columns * 1.5 m = 46.5</p>
 <p>Electronic version of data supplied by David Clifford.</p>
     </div>
@@ -101,23 +87,23 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    <p>Kempton, Statistical Methods for Plant Variety Evaluation, page 91--92</p>
+    <p>Kempton, Statistical Methods for Plant Variety Evaluation, page 91–92</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">besag.checks</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">besag.checks</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="va">gen</span>, aspect<span class="op">=</span><span class="fl">234</span><span class="op">/</span><span class="fl">46.5</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"besag.checks"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -126,14 +112,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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index d3fb215d..f9ce6664 100644
--- a/reference/besag.elbatan.html
+++ b/reference/besag.elbatan.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="RCB experiment of wheat, 50 varieties in 3 blocks with strong
-  spatial trend."><title>RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan"><meta property="og:description" content="RCB experiment of wheat, 50 varieties in 3 blocks with strong
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend.</h1>
-      
+
       <div class="d-none name"><code>besag.elbatan.Rd</code></div>
     </div>
 
@@ -76,13 +62,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>row</code></dt>
 <dd><p>row</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>RCB experiment on wheat at El Batan, Mexico.  There are three
   single-column replicates with 50 varieties in each replicate.</p>
-<p>Plot dimensions are not given by Besag.</p>  
+<p>Plot dimensions are not given by Besag.</p>
 <p>Data retrieved from
   https://web.archive.org/web/19991008143232/www.stat.duke.edu/~higdon/trials/elbatan.dat</p>
 <p>Used with permission of David Higdon.</p>
@@ -91,7 +77,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Julian Besag and D Higdon, 1999.
   Bayesian Analysis of Agricultural Field Experiments,
-  Journal of the Royal Statistical Society: Series B,61, 691--746.
+  Journal of the Royal Statistical Society: Series B,61, 691–746.
   Table 1.
   https://doi.org/10.1111/1467-9868.00201</p>
     </div>
@@ -103,14 +89,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">besag.elbatan</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">besag.elbatan</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        num<span class="op">=</span><span class="va">gen</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"besag.elbatan - wheat yields"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -149,10 +135,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/text.html" class="external-link">text</a></span><span class="op">(</span><span class="va">p1</span>, <span class="va">p2</span>, <span class="fl">1</span><span class="op">:</span><span class="fl">50</span>, cex<span class="op">=</span><span class="fl">.5</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/abline.html" class="external-link">abline</a></span><span class="op">(</span><span class="fl">0</span>,<span class="fl">1</span>,col<span class="op">=</span><span class="st">"gray"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -161,14 +147,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/besag.endive.html b/reference/besag.endive.html
index d5fba02f..b0ca3652 100644
--- a/reference/besag.endive.html
+++ b/reference/besag.endive.html
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       <img src="../logo.png" class="logo" alt=""><h1>Presence of footroot disease in an endive field</h1>
-      
+
       <div class="d-none name"><code>besag.endive.Rd</code></div>
     </div>
 
@@ -70,12 +56,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>disease</code></dt>
 <dd><p>plant is diseased, Y=yes,N=no</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>In a field of endives, does each plant have footrot, or not?  Data are
-  binary on a lattice of 14 x 179 plants.</p>  
+  binary on a lattice of 14 x 179 plants.</p>
 <p>Modeled as an autologistic distribution.</p>
 <p>We assume the endives are a single genotype.</p>
 <p>Besag (1978) may have had data taken at 4 time points.  This data
@@ -99,7 +85,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">besag.endive</span><span class="op">)</span></span></span>
@@ -108,7 +94,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Incidence map.  Figure 2 of Friel and Pettitt</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">grays</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"#d9d9d9"</span>,<span class="st">"#252525"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">disease</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">disease</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          col.regions<span class="op">=</span><span class="fu">grays</span><span class="op">(</span><span class="fl">2</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          aspect <span class="op">=</span> <span class="fl">0.5</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"besag.endive - Disease incidence"</span><span class="op">)</span></span></span>
@@ -146,17 +132,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># suggesting the pattern is more 'patchy' than just random noise,</span></span></span>
 <span class="r-in"><span>    <span class="co"># but is it meaningful?</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##       effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##     xf:yf(R)   0.1301   0.003798    34       P   0</span></span></span>
 <span class="r-in"><span>    <span class="co">## xf:yf!xf!cor   0.1699   0.01942      8.7     U   0</span></span></span>
 <span class="r-in"><span>    <span class="co">## xf:yf!yf!cor   0.09842  0.02038      4.8     U   0</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -165,14 +151,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn, incomplete-block design</h1>
-      
+
       <div class="d-none name"><code>besag.met.Rd</code></div>
     </div>
 
@@ -82,11 +68,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>gen</code></dt>
 <dd><p>genotype, 1-64</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Multi-environment trial of 64 corn hybrids in six counties in North
   Carolina.  Each location had 3 replicates in in incomplete-block
@@ -98,10 +84,10 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   sets the yield to missing.  These missing values were added to the
   data so that asreml could more easily do AR1xAR1 analysis using
   rectangular regions.</p>
-<p>Each location/panel is:</p>  
+<p>Each location/panel is:</p>
 <p>Field length: 18 rows * 2 units = 36 units.</p>
 <p>Field width: 11 plots * 1 unit = 11 units.</p>
-  
+
 <p>Retrieved from
   https://web.archive.org/web/19990505223413/www.stat.duke.edu/~higdon/trials/nc.dat</p>
 <p>Used with permission of David Higdon.</p>
@@ -110,21 +96,21 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Julian Besag and D Higdon, 1999.
   Bayesian Analysis of Agricultural Field Experiments,
-  Journal of the Royal Statistical Society: Series B, 61, 691--746.
+  Journal of the Royal Statistical Society: Series B, 61, 691–746.
   Table 1.
   https://doi.org/10.1111/1467-9868.00201</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">besag.met</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">besag.met</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">county</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">county</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">36</span><span class="op">/</span><span class="fl">11</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"besag.met"</span><span class="op">)</span></span></span>
@@ -227,10 +213,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>   <span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">bi3</span>, stand<span class="op">=</span><span class="cn">FALSE</span>, main<span class="op">=</span><span class="st">"SVD biplot of FA2 predictions"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -239,14 +225,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index debbfe93..4eda424c 100644
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+++ b/reference/besag.triticale.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Four-way factorial agronomic experiment in triticale</h1>
-      
+
       <div class="d-none name"><code>besag.triticale.Rd</code></div>
     </div>
 
@@ -86,7 +72,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>regulator</code></dt>
 <dd><p>growth regulator, 3 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -109,7 +95,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">besag.triticale</span><span class="op">)</span></span></span>
@@ -118,7 +104,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, xf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, yf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"besag.triticale"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -167,10 +153,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## residual (MS)          12391                             </span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -179,14 +165,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/blackman.wheat.html b/reference/blackman.wheat.html
index 2766a5a0..ef84a152 100644
--- a/reference/blackman.wheat.html
+++ b/reference/blackman.wheat.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of wheat, conventional and semi-dwarf
-  varieties, 7 locs with low/high fertilizer levels."><title>Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat"><meta property="og:description" content="Multi-environment trial of wheat, conventional and semi-dwarf
-  varieties, 7 locs with low/high fertilizer levels."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat"><meta name="description" content="Multi-environment trial of wheat, conventional and semi-dwarf
+  varieties, 7 locs with low/high fertilizer levels."><meta property="og:description" content="Multi-environment trial of wheat, conventional and semi-dwarf
+  varieties, 7 locs with low/high fertilizer levels."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat, conventional and semi-dwarf varieties</h1>
-      
+
       <div class="d-none name"><code>blackman.wheat.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>type</code></dt>
 <dd><p>type factor, conventional/semi-dwarf</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Blackman, JA and Bingham, J. and Davidson, JL (1978).
   Response of semi-dwarf and conventional winter wheat varieties to the
   application of nitrogen fertilizer.
-  <em>The Journal of Agricultural Science</em>, 90, 543--550.
+  <em>The Journal of Agricultural Science</em>, 90, 543–550.
   https://doi.org/10.1017/S0021859600056070</p>
     </div>
     <div class="section level2">
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">blackman.wheat</span><span class="op">)</span></span></span>
@@ -143,10 +129,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/stats/prcomp.html" class="external-link">prcomp</a></span><span class="op">(</span><span class="va">datm</span><span class="op">)</span>, main<span class="op">=</span><span class="st">"blackman.wheat AMMI-style biplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -155,14 +141,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/bliss.borers.html b/reference/bliss.borers.html
index ecad9e90..29c74875 100644
--- a/reference/bliss.borers.html
+++ b/reference/bliss.borers.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Corn borer infestation under four treatments</h1>
-      
+
       <div class="d-none name"><code>bliss.borers.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>freq</code></dt>
 <dd><p>frequency of the borer count</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -85,7 +71,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>C. Bliss and R. A. Fisher. (1953).
   Fitting the Negative Binomial Distribution to Biological Data.
-  <em>Biometrics</em>, 9, 176--200.  Table 3.
+  <em>Biometrics</em>, 9, 176–200.  Table 3.
   https://doi.org/10.2307/3001850</p>
 <p>Geoffrey Beall. 1940. The Fit and Significance of Contagious
   Distributions when Applied to Observations on Larval Insects.
@@ -95,7 +81,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bliss.borers</span><span class="op">)</span></span></span>
@@ -143,10 +129,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">g1</span> <span class="op">&lt;-</span> <span class="fu">vcd</span><span class="fu">::</span><span class="fu"><a href="https://rdrr.io/pkg/vcd/man/goodfit.html" class="external-link">goodfit</a></span><span class="op">(</span><span class="va">dat2</span><span class="op">$</span><span class="va">borers</span>, <span class="st">"nbinomial"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">g1</span>, main<span class="op">=</span><span class="st">"bliss.borers - Treatment 2"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -155,14 +141,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/bond.diallel.html b/reference/bond.diallel.html
index c1d0fd5b..45d32133 100644
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@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Diallel cross of winter beans</h1>
-      
+
       <div class="d-none name"><code>bond.diallel.Rd</code></div>
     </div>
 
@@ -94,7 +80,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>flower</code></dt>
 <dd><p>mean flowering date in May</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,7 +91,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>D. A. Bond (1966). Yield and components of yield in diallel crosses
   between inbred lines of winter beans (Viciafaba).
-  <em>The Journal of Agricultural Science</em>, 67, 325--336.
+  <em>The Journal of Agricultural Science</em>, 67, 325–336.
   https://doi.org/10.1017/S0021859600017329</p>
     </div>
     <div class="section level2">
@@ -115,7 +101,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bond.diallel</span><span class="op">)</span></span></span>
@@ -143,10 +129,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/cor.html" class="external-link">cov2cor</a></span><span class="op">(</span><span class="va">m1</span><span class="op">$</span><span class="va">sigma</span><span class="op">$</span><span class="va">`u:male`</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/cor.html" class="external-link">cov2cor</a></span><span class="op">(</span><span class="va">m1</span><span class="op">$</span><span class="va">sigma</span><span class="op">$</span><span class="va">`u:units`</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -155,14 +141,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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+
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index dccfcec9..ac4439f1 100644
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+++ b/reference/bose.multi.uniformity.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of barley, wheat, lentils</h1>
-      
+
       <div class="d-none name"><code>bose.multi.uniformity.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot in grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,11 +74,11 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   in 1929-1930) with barley, wheat, and lentil.</p>
 <p>At harvest, borders 3 feet on east and west and 6 feet on north and
   south were removed. The field was divided into plots four feet square,
-  which were harvested separately, measured in grams.</p>  
+  which were harvested separately, measured in grams.</p>
 <p>Fertility contours of the field were somewhat similar across years,
-  with correlation values across years 0.45, 0.48, 0.21.</p>  
-<p>Field width: 15 plots * 4 feet = 60 feet.</p>  
-<p>Field length: 26 plots * 4 feet = 104 feet.</p>  
+  with correlation values across years 0.45, 0.48, 0.21.</p>
+<p>Field width: 15 plots * 4 feet = 60 feet.</p>
+<p>Field length: 26 plots * 4 feet = 104 feet.</p>
 <p>Conclusions:</p>
 <p>"An experimental field which may be sensibly uniform for one crop or
   for one season may not be so for another crop or in a different
@@ -101,7 +87,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Bose, R. D. (1935).
-  Some soil heterogeneity trials at Pusa and the size and shape of experimental plots. 
+  Some soil heterogeneity trials at Pusa and the size and shape of experimental plots.
   Ind. J. Agric. Sci., 5, 579-608. Table 1 (p. 585), Table 4 (p. 589), Table 5 (p. 590).
   https://archive.org/details/in.ernet.dli.2015.271739</p>
     </div>
@@ -114,7 +100,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bose.multi.uniformity</span><span class="op">)</span></span></span>
@@ -133,7 +119,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu">mutate</span><span class="op">(</span><span class="va">dat</span>, year<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/character.html" class="external-link">as.character</a></span><span class="op">(</span><span class="va">year</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Bose smoothed the data by averaging 2x3 plots together before drawing</span></span></span>
 <span class="r-in"><span>  <span class="co"># contour maps.  Heatmaps of raw data have similar structure to Bose Fig 1.</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">pctyld</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">pctyld</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">26</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">15</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"bose.multi.* - Percent of mean yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -141,10 +127,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># contourplot(pctyld ~ col*row|year, dat,</span></span></span>
 <span class="r-in"><span>  <span class="co">#   region=TRUE, as.table=TRUE, aspect=26/15)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -153,14 +139,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/box.cork.html b/reference/box.cork.html
index f0e5f5c4..151b83e6 100644
--- a/reference/box.cork.html
+++ b/reference/box.cork.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="The cork data gives the weights of cork borings of the trunk for 28 trees
-  on the north (N), east (E), south (S) and west (W) directions."><title>Weight of cork samples on four sides of trees — box.cork • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight of cork samples on four sides of trees — box.cork"><meta property="og:description" content="The cork data gives the weights of cork borings of the trunk for 28 trees
-  on the north (N), east (E), south (S) and west (W) directions."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Weight of cork samples on four sides of trees — box.cork • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight of cork samples on four sides of trees — box.cork"><meta name="description" content="The cork data gives the weights of cork borings of the trunk for 28 trees
+  on the north (N), east (E), south (S) and west (W) directions."><meta property="og:description" content="The cork data gives the weights of cork borings of the trunk for 28 trees
+  on the north (N), east (E), south (S) and west (W) directions."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Weight of cork samples on four sides of trees</h1>
-      
+
       <div class="d-none name"><code>box.cork.Rd</code></div>
     </div>
 
@@ -73,19 +59,19 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>weight of cork deposit (centigrams), north direction</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>C.R. Rao (1948).
-  Tests of significance in multivariate analysis. 
+  Tests of significance in multivariate analysis.
   <em>Biometrika</em>, 35, 58-79.
   https://doi.org/10.2307/2332629</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
-  
+
+
 <p>K.V. Mardia, J.T. Kent and J.M. Bibby (1979) <em>Multivariate Analysis</em>,
   Academic Press.</p>
 <p>Russell D Wolfinger, (1996).
@@ -96,7 +82,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">box.cork</span><span class="op">)</span></span></span>
@@ -135,7 +121,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Unstructured covariance matrix</span></span></span>
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">y</span><span class="op">~</span><span class="va">dir</span>, data<span class="op">=</span><span class="va">dat</span>, residual <span class="op">=</span> <span class="op">~</span> <span class="va">tree</span><span class="op">:</span><span class="fu">us</span><span class="op">(</span><span class="va">dir</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
 <span class="r-in"><span>    <span class="co"># Note: 'rcor' is a personal function to extract the correlations</span></span></span>
 <span class="r-in"><span>    <span class="co"># into a matrix format</span></span></span>
@@ -159,10 +145,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># W 182.27 228.43 253.94 225.99</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -171,14 +157,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/bradley.multi.uniformity.html b/reference/bradley.multi.uniformity.html
index a37b32ad..1ffb7eea 100644
--- a/reference/bradley.multi.uniformity.html
+++ b/reference/bradley.multi.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of 4 crops on the same land</h1>
-      
+
       <div class="d-none name"><code>bradley.multi.uniformity.Rd</code></div>
     </div>
 
@@ -80,13 +66,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>crop</code></dt>
 <dd><p>crop</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>Experiments conducted in Trinidad.</p>  
+
+<p>Experiments conducted in Trinidad.</p>
 <p>Plots were marked in May 1939 in Fields 1, 2, and 3. Prior to 1939 it
   was difficult to obtain significant results on this land.</p>
 <p>Plots were 1/40 acre each, 33 feet square. Discard between blocks (the
@@ -142,7 +128,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bradley.multi.uniformity</span><span class="op">)</span></span></span>
@@ -150,20 +136,20 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># figures similar to Bradley, pages 11-15</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">1</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">433</span><span class="op">/</span><span class="fl">366</span>, <span class="co"># true aspect (omits roadways)</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"bradley.multi.uniformity - season 1, woolly pyrol"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">2</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">2</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">433</span><span class="op">/</span><span class="fl">366</span>, <span class="co"># true aspect (omits roadways)</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"bradley.multi.uniformity - season 2, woolly pyrol"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">3</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">3</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">433</span><span class="op">/</span><span class="fl">366</span>, <span class="co"># true aspect (omits roadways)</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"bradley.multi.uniformity - season 3, maize"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">4</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="fl">4</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">433</span><span class="op">/</span><span class="fl">366</span>, <span class="co"># true aspect (omits roadways)</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"bradley.multi.uniformity - season 4, yams"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -186,14 +172,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat14</span><span class="op">$</span><span class="va">fertility</span> <span class="op">&lt;-</span> <span class="va">dat1</span><span class="op">$</span><span class="va">percent</span> <span class="op">+</span> <span class="va">dat2</span><span class="op">$</span><span class="va">percent</span> <span class="op">+</span> <span class="va">dat3</span><span class="op">$</span><span class="va">percent</span> <span class="op">+</span> <span class="va">dat4</span><span class="op">$</span><span class="va">percent</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat14</span>, <span class="va">fertility</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat14</span>, <span class="va">fertility</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">433</span><span class="op">/</span><span class="fl">366</span>, <span class="co"># true aspect (omits roadways)</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"bradley.multi.uniformity - fertility"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -202,14 +188,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/brandle.rape.html b/reference/brandle.rape.html
index 8e4ace89..3d1c71d4 100644
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+++ b/reference/brandle.rape.html
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of rape in Manitoba</h1>
-      
+
       <div class="d-none name"><code>brandle.rape.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,12 +74,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Brandle, JE and McVetty, PBE. (1988).
   Genotype x environment interaction and stability analysis of seed
   yield of oilseed rape grown in Manitoba.
-  Canadian Journal of Plant Science, 68, 381--388.</p>
+  Canadian Journal of Plant Science, 68, 381–388.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">brandle.rape</span><span class="op">)</span></span></span>
@@ -123,10 +109,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##      gen (Intercept) &lt;NA&gt; 72630 269.5</span></span></span>
 <span class="r-in"><span><span class="co">## Residual        &lt;NA&gt; &lt;NA&gt; 75010 273.9</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
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+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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index b29f1f38..de652a6b 100644
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@@ -1,56 +1,42 @@
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Switchback experiment on dairy cattle, milk yield for two treatments</h1>
-      
+
       <div class="d-none name"><code>brandt.switchback.Rd</code></div>
     </div>
 
@@ -80,12 +66,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>milk yield, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>In this experiment, 10 cows were selected from the Iowa State College
   Holstein-Friesian herd and divided into two equal groups. Care was
   taken to have the groups as nearly equal as possible with regard to
@@ -96,7 +82,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   cob meal to 1 part of ground oats, while treatment T2 consisted of
   feeding a grain mixture of 4 parts corn and cob meal, 4 parts of
   ground oats and 3 parts of gluten feed. The three treatment periods
-  covered 105 days -- three periods of 35 days each. The yields for the
+  covered 105 days – three periods of 35 days each. The yields for the
   first 7 days of each period were not considered because of the
   possible effect of the transition from one treatment to the other. The
   data, together with sums and differences which aid in the calculations
@@ -115,7 +101,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -139,10 +125,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">period</span><span class="op">+</span><span class="va">group</span><span class="op">+</span><span class="va">cow</span><span class="op">:</span><span class="va">group</span><span class="op">+</span><span class="va">period</span><span class="op">:</span><span class="va">group</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/bridges.cucumber.html b/reference/bridges.cucumber.html
index ccc0219f..3d4a2dfb 100644
--- a/reference/bridges.cucumber.html
+++ b/reference/bridges.cucumber.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Cucumber yields in latin square design at two locs."><title>Multi-environment trial of cucumbers in a latin square design — bridges.cucumber • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of cucumbers in a latin square design — bridges.cucumber"><meta property="og:description" content="Cucumber yields in latin square design at two locs."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of cucumbers in a latin square design — bridges.cucumber • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of cucumbers in a latin square design — bridges.cucumber"><meta name="description" content="Cucumber yields in latin square design at two locs."><meta property="og:description" content="Cucumber yields in latin square design at two locs."><meta property="og:image" content="/logo.png"></head><body>
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-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of cucumbers in a latin square design</h1>
-      
+
       <div class="d-none name"><code>bridges.cucumber.Rd</code></div>
     </div>
 
@@ -76,12 +62,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>weight of marketable fruit per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Conducted at Clemson University in 1985.  four cucumber cultivars
   were grown in a latin square design at Clemson, SC, and Tifton, GA.</p>
 <p>Separate variances are modeled each location.</p>
@@ -96,12 +82,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   Analysis of a plant breeding experiment with
   heterogeneous variances using mixed model equations.
   Applications of mixed models in agriculture and related
-    disciplines, S. Coop. Ser. Bull, 45--51.</p>
+    disciplines, S. Coop. Ser. Bull, 45–51.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bridges.cucumber</span><span class="op">)</span></span></span>
@@ -109,7 +95,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, rowf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span>, colf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>,</span></span>
 <span class="r-in"><span>          <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"bridges.cucumber"</span><span class="op">)</span></span></span>
@@ -132,7 +118,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fl">1</span> <span class="op">+</span> <span class="va">gen</span> <span class="op">+</span> <span class="va">loc</span> <span class="op">+</span> <span class="va">loc</span><span class="op">:</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>                 random <span class="op">=</span> <span class="op">~</span> <span class="va">rowf</span><span class="op">:</span><span class="va">loc</span> <span class="op">+</span> <span class="va">colf</span><span class="op">:</span><span class="va">loc</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##   effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">## rowf:loc     31.62     23.02     1.4     P   0</span></span></span>
 <span class="r-in"><span>    <span class="co">## colf:loc     18.08     15.32     1.2     P   0</span></span></span>
@@ -142,7 +128,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fl">1</span> <span class="op">+</span> <span class="va">gen</span> <span class="op">+</span> <span class="va">loc</span> <span class="op">+</span> <span class="va">loc</span><span class="op">:</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>                 random <span class="op">=</span> <span class="op">~</span> <span class="fu">at</span><span class="op">(</span><span class="va">loc</span><span class="op">)</span><span class="op">:</span><span class="va">rowf</span> <span class="op">+</span> <span class="fu">at</span><span class="op">(</span><span class="va">loc</span><span class="op">)</span><span class="op">:</span><span class="va">colf</span>, data<span class="op">=</span><span class="va">dat</span>,</span></span>
 <span class="r-in"><span>                 resid <span class="op">=</span> <span class="op">~</span> <span class="fu">dsum</span><span class="op">(</span> <span class="op">~</span> <span class="va">units</span><span class="op">|</span><span class="va">loc</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##                effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">## at(loc, Clemson):rowf     32.32    36.58     0.88     P   0</span></span></span>
 <span class="r-in"><span>    <span class="co">##  at(loc, Tifton):rowf     30.92    28.63     1.1      P   0</span></span></span>
@@ -169,10 +155,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## -66.35621</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -181,14 +167,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/broadbalk.wheat.html b/reference/broadbalk.wheat.html
index 76f7ac66..2ff2fca3 100644
--- a/reference/broadbalk.wheat.html
+++ b/reference/broadbalk.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Long term wheat yields on Broadbalk fields at Rothamsted."><title>Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat"><meta property="og:description" content="Long term wheat yields on Broadbalk fields at Rothamsted."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat"><meta name="description" content="Long term wheat yields on Broadbalk fields at Rothamsted."><meta property="og:description" content="Long term wheat yields on Broadbalk fields at Rothamsted."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Long term wheat yields on Broadbalk fields at Rothamsted.</h1>
-      
+
       <div class="d-none name"><code>broadbalk.wheat.Rd</code></div>
     </div>
 
@@ -73,16 +59,16 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>straw</code></dt>
 <dd><p>straw yield, tonnes</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Note: This data is only 1852-1925.  You can find recent data for these
   experiments at the Electronic Rothamsted Archive:
   https://www.era.rothamsted.ac.uk/</p>
-  
+
 <p>Rothamsted Experiment station conducted wheat experiments on the
   Broadbalk Fields beginning in 1844 with data for yields of grain and
   straw collected from 1852 to 1925.
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">broadbalk.wheat</span><span class="op">)</span></span></span>
@@ -123,10 +109,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">redblue</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"firebrick"</span>, <span class="st">"lightgray"</span>, <span class="st">"#375997"</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/levelplot.html" class="external-link">levelplot</a></span><span class="op">(</span><span class="va">grain</span><span class="op">~</span><span class="va">year</span><span class="op">*</span><span class="va">plot</span>, <span class="va">dat</span>, main<span class="op">=</span><span class="st">"broadbalk.wheat: Grain"</span>, col.regions<span class="op">=</span><span class="va">redblue</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/bryan.corn.uniformity.html b/reference/bryan.corn.uniformity.html
index 7a0439e6..55da6ad1 100644
--- a/reference/bryan.corn.uniformity.html
+++ b/reference/bryan.corn.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of corn at 3 locations in Iowa.</h1>
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+
       <div class="d-none name"><code>bryan.corn.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -86,7 +72,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   A "hill" is a single hole with possibly multiple seeds.
   Spacing between the hills would be sqrt(43560 sq ft * .64) / 48 = 3.5 feet.</p>
 <p>In the experiment code, K=Krug, I=Iodent, M=McCulloch (varieties of
-  corn), 23=1923, 25=1925, E=East/West, N=North/South.</p>  
+  corn), 23=1923, 25=1925, E=East/West, N=North/South.</p>
 <p>Each experiment was aggregated into experimental units by combining 8
   hills, both in East/West direction and also in North/South direction.
   Thus, each field is represented twice in the data, once with "E" in
@@ -106,13 +92,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">bryan.corn.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">bryan.corn.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"bryan.corn.uniformity"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">48</span><span class="op">*</span><span class="fl">3.5</span><span class="op">/</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">8</span><span class="op">*</span><span class="fl">3.5</span><span class="op">)</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
@@ -129,10 +115,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 5 M25E  16.2</span></span></span>
 <span class="r-in"><span>  <span class="co">## 6 M25N  17.2</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index 2fd2eb71..b5c45e94 100644
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@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat in Sweden in 2016.</h1>
-      
+
       <div class="d-none name"><code>buntaran.wheat.Rd</code></div>
     </div>
 
@@ -83,13 +69,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>Dry matter yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Dry matter yield from wheat trials in Sweden in 2016. The experiments
   in each location were multi-rep with incomplete blocks in an alpha
-  design.</p>  
+  design.</p>
 <p>Electronic data are from the online supplement of Buntaran (2020) and also from the "init" package at https://github.com/Flavjack/inti.</p>
     </div>
     <div class="section level2">
@@ -106,7 +92,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">buntaran.wheat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">buntaran.wheat</span></span></span>
@@ -114,10 +100,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">bwplot</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">loc</span><span class="op">|</span><span class="va">zone</span>, <span class="va">dat</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">3</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>       scales<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>x<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>rot<span class="op">=</span><span class="fl">90</span><span class="op">)</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"buntaran.wheat"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -126,14 +112,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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+
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index 431d8d7b..bcd97f99 100644
--- a/reference/burgueno.alpha.html
+++ b/reference/burgueno.alpha.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Incomplete block alpha design"><title>Incomplete block alpha design — burgueno.alpha • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Incomplete block alpha design — burgueno.alpha"><meta property="og:description" content="Incomplete block alpha design"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Incomplete block alpha design — burgueno.alpha • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Incomplete block alpha design — burgueno.alpha"><meta name="description" content="Incomplete block alpha design"><meta property="og:description" content="Incomplete block alpha design"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Incomplete block alpha design</h1>
-      
+
       <div class="d-none name"><code>burgueno.alpha.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -96,21 +82,21 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>J Burgueno, A Cadena, J Crossa, M Banziger, A Gilmour, B Cullis. 2000.
-  User's guide for spatial analysis of field variety trials using ASREML.  
+  User's guide for spatial analysis of field variety trials using ASREML.
   CIMMYT.
   https://books.google.com/books?id=PR_tYCFyLCYC&amp;pg=PA1</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">burgueno.alpha</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">burgueno.alpha</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">block</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">1</span>,shorten<span class="op">=</span><span class="st">"none"</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">'burgueno.alpha'</span><span class="op">)</span></span></span>
@@ -195,10 +181,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">m13</span><span class="op">$</span><span class="va">loglik</span> <span class="co"># -207.52</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -207,14 +193,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/burgueno.rowcol.html b/reference/burgueno.rowcol.html
index 2aa82ae4..0a27ac7e 100644
--- a/reference/burgueno.rowcol.html
+++ b/reference/burgueno.rowcol.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Row-column design"><title>Row-column design — burgueno.rowcol • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Row-column design — burgueno.rowcol"><meta property="og:description" content="Row-column design"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Row-column design — burgueno.rowcol • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Row-column design — burgueno.rowcol"><meta name="description" content="Row-column design"><meta property="og:description" content="Row-column design"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Row-column design</h1>
-      
+
       <div class="d-none name"><code>burgueno.rowcol.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, tons/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,7 +85,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">burgueno.rowcol</span><span class="op">)</span></span></span>
@@ -107,7 +93,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Two contiguous reps in 8 rows, 16 columns</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">rep</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, shorten<span class="op">=</span><span class="st">"none"</span>, cex<span class="op">=</span><span class="fl">.75</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"burgueno.rowcol"</span><span class="op">)</span></span></span>
@@ -135,7 +121,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span> <span class="co"># More iterations</span></span></span>
 <span class="r-in"><span>    </span></span>
 <span class="r-in"><span>    <span class="co"># Scaling of spl components has changed in asreml from old versions</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span> <span class="co"># Match Burgueno p. 42</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span> <span class="co"># Match Burgueno p. 42</span></span></span>
 <span class="r-in"><span>    <span class="co">##       effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##      spl(yf)  0.09077    0.08252   1.1       P 0</span></span></span>
 <span class="r-in"><span>    <span class="co">##      spl(xf)  0.08107    0.08209   0.99      P 0</span></span></span>
@@ -146,10 +132,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="fu">varioGram</span><span class="op">(</span><span class="va">m2</span><span class="op">)</span>, main<span class="op">=</span><span class="st">"burgueno.rowcol"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -158,14 +144,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/burgueno.unreplicated.html b/reference/burgueno.unreplicated.html
index e0a8c379..17fb231c 100644
--- a/reference/burgueno.unreplicated.html
+++ b/reference/burgueno.unreplicated.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Field experiment with unreplicated genotypes plus one repeated check.</h1>
-      
+
       <div class="d-none name"><code>burgueno.unreplicated.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, tons/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -96,7 +82,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">burgueno.unreplicated</span><span class="op">)</span></span></span>
@@ -106,7 +92,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">check</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/ifelse.html" class="external-link">ifelse</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">==</span><span class="st">"G000"</span>, <span class="fl">2</span>, <span class="fl">1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Every fourth column is the 'check' genotype</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          col<span class="op">=</span><span class="va">check</span>, num<span class="op">=</span><span class="va">gen</span>, <span class="co">#text=gen, cex=.3, # aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"burgueno.unreplicated"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -118,7 +104,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">dat</span><span class="op">[</span><span class="fu"><a href="https://rdrr.io/r/base/order.html" class="external-link">order</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">xf</span>,<span class="va">dat</span><span class="op">$</span><span class="va">yf</span><span class="op">)</span>,<span class="op">]</span></span></span>
 <span class="r-in"><span>    <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fl">1</span>, data<span class="op">=</span><span class="va">dat</span>, random <span class="op">=</span> <span class="op">~</span> <span class="va">gen</span>,</span></span>
 <span class="r-in"><span>                 resid <span class="op">=</span> <span class="op">~</span> <span class="fu">ar1</span><span class="op">(</span><span class="va">xf</span><span class="op">)</span><span class="op">:</span><span class="fu">ar1</span><span class="op">(</span><span class="va">yf</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##       effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##          gen    0.9122   0.127       7.2     P 0  </span></span></span>
 <span class="r-in"><span>    <span class="co">##     xf:yf(R)    0.4993   0.05601     8.9     P 0  </span></span></span>
@@ -145,10 +131,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Much better-looking variogram</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -157,14 +143,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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index b6a1de93..81a140b0 100644
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize with pedigrees</h1>
-      
+
       <div class="d-none name"><code>butron.maize.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, Mg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">butron.maize</span><span class="op">)</span></span></span>
@@ -182,10 +168,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Including the pedigree provided very little change</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
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+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -194,14 +180,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/byers.apple.html b/reference/byers.apple.html
index 7f96d473..145b6e08 100644
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@@ -1,56 +1,42 @@
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Diameters of apples</h1>
-      
+
       <div class="d-none name"><code>byers.apple.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>diameter</code></dt>
 <dd><p>diameter, inches</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">byers.apple</span><span class="op">)</span></span></span>
@@ -124,11 +110,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">##  (Intercept) 0.007354   0.08575    NA</span></span></span>
 <span class="r-in"><span>  <span class="co">##         time 0.00003632 0.006027 0.83</span></span></span>
 <span class="r-in"><span>  <span class="co">##     Residual 0.0004555  0.02134    NA</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/caribbean.maize-3.png b/reference/caribbean.maize-3.png
index 3ee32a7f..2a1c460d 100644
Binary files a/reference/caribbean.maize-3.png and b/reference/caribbean.maize-3.png differ
diff --git a/reference/caribbean.maize.html b/reference/caribbean.maize.html
index cefb016f..27deac53 100644
--- a/reference/caribbean.maize.html
+++ b/reference/caribbean.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize with fertilization</h1>
-      
+
       <div class="d-none name"><code>caribbean.maize.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
 <dd><p>plot, numeric</p></dd>
 
     <dt><code>trt</code></dt>
-<dd><p>treatment factor</p></dd>
+<dd><p>treatment factor combining N,P,K</p></dd>
 
     <dt><code>ears</code></dt>
 <dd><p>number of ears harvested</p></dd>
@@ -82,34 +68,50 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield in kilograms</p></dd>
 
-  
+    <dt><code>N</code></dt>
+<dd><p>nitrogen fertilizer level</p></dd>
+
+    <dt><code>P</code></dt>
+<dd><p>phosphorous fertilizer level</p></dd>
+
+    <dt><code>K</code></dt>
+<dd><p>potassium fertilizer level</p></dd>
+
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>Antigua is a coral island in the Caribbean with sufficient level
+
+
+<p>Antigua is a coral island in the Caribbean with sufficient level
   land for experiments and a semi-arid climate, while St. Vincent
   is volcanic and level areas are uncommon, but the rainfall can
   be seasonally heavy.</p>
+<p>There are 8-9 sites on each island.</p>
 <p>Plots were 16 feet by 18 feet. A central area 12 feet by 12 feet was
   harvested and recorded.</p>
 <p>The number of ears harvested was only recorded on the isle of Antigua.</p>
+<p>The actual amounts of N, P, and K are not given. Only 0, 1, 2, 3.</p>
 <p>The digits of the treatment represent the levels of nitrogen,
   phosphorus, and potassium fertilizer, respectively.</p>
-<p>The TEAN site suffered damage from goats on plot 27, 35 and 36.
-  The LFAN site suffered damage from cattle on one boundary--plots 9,
+<p>The TEAN site suffered damage from goats on plot 27, 35 and 36.</p>
+<p>The LFAN site suffered damage from cattle on one boundary–plots 9,
   18, 27, 36.</p>
-<p>Electronic version of the data was retrieved from http://lib.stat.cmu.edu/datasets/Andrews/</p>
+<p>Electronic version of the data was retrieved from
+  http://lib.stat.cmu.edu/datasets/Andrews/
+  https://www2.stat.duke.edu/courses/Spring01/sta114/data/andrews.html</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>D.F. Andrews and A.M. Herzberg. 1985.
 	Data: A Collection of Problems from Many Fields for the Student
 	and Research Worker.
-  Springer.</p>
+  Springer.
+  Table 58.1 and 58.2.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    <p>Also in the DAAG package as data sets antigua, stVincent.</p>
+    <p>Also in the DAAG package as data sets antigua and stVincent.</p>
     </div>
 
     <div class="section level2">
@@ -128,19 +130,15 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">trt</span><span class="op">~</span><span class="va">yield</span><span class="op">|</span><span class="va">site</span>, data<span class="op">=</span><span class="va">dat</span>, main<span class="op">=</span><span class="st">"caribbean.maize treatment response"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="caribbean.maize-2.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># The pattern is a bit hard to see, so we split the treatment factor</span></span></span>
-<span class="r-in"><span><span class="co"># into separate factors, and group sites by island</span></span></span>
-<span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, N<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">trt</span>,<span class="fl">2</span>,<span class="fl">2</span><span class="op">)</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>                      P<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">trt</span>,<span class="fl">3</span>,<span class="fl">3</span><span class="op">)</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>                      K<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">trt</span>,<span class="fl">4</span>,<span class="fl">4</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="co"># Show the strong N*site interaction with little benefit on Antiqua, but</span></span></span>
+<span class="r-in"><span><span class="co"># a strong response on St.Vincent.</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, env<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/paste.html" class="external-link">paste</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">isle</span>,<span class="fl">1</span>,<span class="fl">1</span><span class="op">)</span>,<span class="va">site</span>,sep<span class="op">=</span><span class="st">"-"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="co"># Now we can see the strong N*site interaction</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">bwplot</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">N</span><span class="op">|</span><span class="va">env</span>, <span class="va">dat</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"caribbean.maize"</span>, xlab<span class="op">=</span><span class="st">"nitrogen"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="caribbean.maize-3.png" alt="" width="700" height="433"></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +147,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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-  
 
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diff --git a/reference/carlson.germination.html b/reference/carlson.germination.html
index 98112a7c..30a70317 100644
--- a/reference/carlson.germination.html
+++ b/reference/carlson.germination.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Germination of alfalfa seeds at various salt concentrations"><title>Germination of alfalfa seeds at various salt concentrations — carlson.germination • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Germination of alfalfa seeds at various salt concentrations — carlson.germination"><meta property="og:description" content="Germination of alfalfa seeds at various salt concentrations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Germination of alfalfa seeds at various salt concentrations</h1>
-      
+
       <div class="d-none name"><code>carlson.germination.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>nacl</code></dt>
 <dd><p>salt concentration percent, 0-2</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -93,7 +79,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">carlson.germination</span><span class="op">)</span></span></span>
@@ -129,10 +115,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## Drylander 1.351201  0.03111795</span></span></span>
 <span class="r-in"><span><span class="co">## Grimm     1.395735  0.04206377</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/carmer.density.html b/reference/carmer.density.html
index 9958e4ce..fa6beb90 100644
--- a/reference/carmer.density.html
+++ b/reference/carmer.density.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Nonlinear maize yield-density model."><title>Nonlinear maize yield-density model — carmer.density • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Nonlinear maize yield-density model — carmer.density"><meta property="og:description" content="Nonlinear maize yield-density model."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Nonlinear maize yield-density model</h1>
-      
+
       <div class="d-none name"><code>carmer.density.Rd</code></div>
     </div>
 
@@ -70,11 +56,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per hill</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>Eight single-cross hybrids were in the experiment--Hy2xOh7 and WF9xC103 were
+    <p>Eight single-cross hybrids were in the experiment–Hy2xOh7 and WF9xC103 were
   included because it was believed they had optimum yields at relatively
   high and low populations.  Planted in 1963.  Plots were thinned to
   2, 4, 6, 8 plants per hill, giving densities 8, 16, 24, 32 thousand
@@ -86,7 +72,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>S G Carmer and J A Jackobs (1965).
   An Exponential Model for Predicting Optimum Plant Density and Maximum
-  Corn Yield. <em>Agronomy Journal</em>, 57, 241--244.
+  Corn Yield. <em>Agronomy Journal</em>, 57, 241–244.
   https://doi.org/10.2134/agronj1965.00021962005700030003x</p>
     </div>
 
@@ -171,7 +157,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -180,14 +166,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/cate.potassium.html b/reference/cate.potassium.html
index f3b7aa8d..4423336c 100644
--- a/reference/cate.potassium.html
+++ b/reference/cate.potassium.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Relative cotton yield for different soil potassium concentrations"><title>Relative cotton yield for different soil potassium concentrations — cate.potassium • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Relative cotton yield for different soil potassium concentrations — cate.potassium"><meta property="og:description" content="Relative cotton yield for different soil potassium concentrations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Relative cotton yield for different soil potassium concentrations — cate.potassium • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Relative cotton yield for different soil potassium concentrations — cate.potassium"><meta name="description" content="Relative cotton yield for different soil potassium concentrations"><meta property="og:description" content="Relative cotton yield for different soil potassium concentrations"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Relative cotton yield for different soil potassium concentrations</h1>
-      
+
       <div class="d-none name"><code>cate.potassium.Rd</code></div>
     </div>
 
@@ -67,7 +53,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>potassium</code></dt>
 <dd><p>Soil potassium, ppm</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -84,13 +70,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Cate, R.B. and Nelson, L.A. (1971).
   A simple statistical procedure for partitioning soil test correlation
   data into two classes.
-  <em>Soil Science Society of America Journal</em>, 35, 658--660.
+  <em>Soil Science Society of America Journal</em>, 35, 658–660.
   https://doi.org/10.2136/sssaj1971.03615995003500040048x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cate.potassium</span><span class="op">)</span></span></span>
@@ -133,11 +119,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># https://joe.org/joe/2013october/tt1.php</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="st">"rcompanion"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cateNelson</span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">x</span>, <span class="va">dat</span><span class="op">$</span><span class="va">y</span>, plotit<span class="op">=</span><span class="fl">0</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -146,14 +132,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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index 68e27b12..dfd0f043 100644
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       <img src="../logo.png" class="logo" alt=""><h1>Factorial experiment of rice, 3x5x3x3</h1>
-      
+
       <div class="d-none name"><code>chakravertti.factorial.Rd</code></div>
     </div>
 
@@ -86,17 +72,17 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>spacing</code></dt>
 <dd><p>spacing, inches, 3 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>There were 4 treatment factors:</p>                       
-<p>3 Genotypes (varieties): Nehara, Bhasamanik, Bhasakalma</p>  
+    <p>There were 4 treatment factors:</p>
+<p>3 Genotypes (varieties): Nehara, Bhasamanik, Bhasakalma</p>
 <p>5 Planting dates: Jul 16, Aug 1, Aug 16, Sep 1, Sep 16</p>
 <p>3 Spacings: 6 in, 9 in, 12 inches</p>
 <p>3 Seedlings per hole: 1, 2, local method</p>
-  
-<p>There were 3x5x3x3=135 treatment combinations. 
+
+<p>There were 3x5x3x3=135 treatment combinations.
   The experiment was divided in 3 blocks (fields).
   Total 405 plots.</p>
 <p>"The plots of the same sowing date within each block were grouped
@@ -127,7 +113,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">agridat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">chakravertti.factorial</span><span class="op">)</span></span></span>
@@ -157,10 +143,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>            data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -169,14 +155,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/chinloy.fractionalfactorial.html b/reference/chinloy.fractionalfactorial.html
index 94dffdf9..7b8f92ef 100644
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+++ b/reference/chinloy.fractionalfactorial.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3</h1>
-      
+
       <div class="d-none name"><code>chinloy.fractionalfactorial.Rd</code></div>
     </div>
 
@@ -95,22 +81,22 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>m</code></dt>
 <dd><p>filter press mud treatment, 3 levels 0, 1, 2</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>An experiment grown in 1949 at the Worthy Park Estate in Jamaica.</p>  
+    <p>An experiment grown in 1949 at the Worthy Park Estate in Jamaica.</p>
 <p>There were 5 treatment factors:</p>
 <p>3 Nitrogen levels: 0, 3, 6 hundred-weight per acre.</p>
-<p>3 Phosphorous levels: 0, 4, 8 hundred-weight per acre.</p>  
+<p>3 Phosphorous levels: 0, 4, 8 hundred-weight per acre.</p>
 <p>3 Potassium (muriate of potash) levels: 0, 1, 2 hundred-weight
-  per acre.</p>  
+  per acre.</p>
 <p>3 Bagasse (applied pre-plant) levels: 0, 20, 40 tons per acre.</p>
 <p>3 Filter press mud (applied pre-plant) levels: 0, 10, 20 tons per acre.</p>
-  
+
 <p>Each plot was 18 yards long by 6 yards (3 rows) wide. Plots were
   arranged in nine columns of nine, a 2-yard space separating plots
-  along the rows and two guard rows separating plots across the rows.</p>  
+  along the rows and two guard rows separating plots across the rows.</p>
 <p>Field width: 6 yards * 9 plots + 4 yards * 8 gaps = 86 yards</p>
 <p>Field length: 18 yards * 9 plots + 2 yards * 8 gaps = 178 yards</p>
     </div>
@@ -128,7 +114,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">chinloy.fractionalfactorial</span><span class="op">)</span></span></span>
@@ -140,7 +126,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Experiment layout</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">trt</span>, shorten<span class="op">=</span><span class="st">"no"</span>, cex<span class="op">=</span><span class="fl">0.6</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">178</span><span class="op">/</span><span class="fl">86</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"chinloy.fractionalfactorial"</span><span class="op">)</span></span></span>
@@ -150,10 +136,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="va">n</span> <span class="op">+</span> <span class="va">p</span> <span class="op">+</span> <span class="va">k</span> <span class="op">+</span> <span class="va">b</span> <span class="op">+</span> <span class="va">m</span> <span class="op">+</span> <span class="va">n</span><span class="op">:</span><span class="va">p</span> <span class="op">+</span> <span class="va">n</span><span class="op">:</span><span class="va">k</span> <span class="op">+</span> <span class="va">n</span><span class="op">:</span><span class="va">b</span> <span class="op">+</span> <span class="va">n</span><span class="op">:</span><span class="va">m</span>, <span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -162,14 +148,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index dfca3057..6d47fd29 100644
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@@ -1,56 +1,42 @@
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Competition between varieties in cotton</h1>
-      
+
       <div class="d-none name"><code>christidis.competition.Rd</code></div>
     </div>
 
@@ -89,11 +75,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>height, cm</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Nine genotypes/varieties of cotton were used in a variety test.
   The plots were 100 meters long and 2.40 meters wide, each plot having
@@ -123,7 +109,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">christidis.competition</span><span class="op">)</span></span></span>
@@ -157,10 +143,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">res</span> <span class="op">~</span>  <span class="va">col</span>, data<span class="op">=</span><span class="va">dat2</span>, group<span class="op">=</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"christidis.competition - residuals"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -169,14 +155,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/christidis.cotton.uniformity.html b/reference/christidis.cotton.uniformity.html
index 2e38f1ab..b70520b6 100644
--- a/reference/christidis.cotton.uniformity.html
+++ b/reference/christidis.cotton.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of cotton in Greece, 1938"><title>Uniformity trial of cotton — christidis.cotton.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of cotton — christidis.cotton.uniformity"><meta property="og:description" content="Uniformity trial of cotton in Greece, 1938"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of cotton — christidis.cotton.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of cotton — christidis.cotton.uniformity"><meta name="description" content="Uniformity trial of cotton in Greece, 1938"><meta property="og:description" content="Uniformity trial of cotton in Greece, 1938"><meta property="og:image" content="/logo.png"></head><body>
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-    
 
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton</h1>
-      
+
       <div class="d-none name"><code>christidis.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block factor</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">christidis.cotton.uniformity</span><span class="op">)</span></span></span>
@@ -114,14 +100,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span><span class="op">$</span><span class="va">yld</span> <span class="op">&lt;-</span> <span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">/</span><span class="fl">4</span><span class="op">*</span><span class="fl">1000</span> <span class="co"># re-scale to match Christidis fig 1</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yld</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yld</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">16</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">64</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"christidis.cotton.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -130,14 +116,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/christidis.wheat.uniformity.html b/reference/christidis.wheat.uniformity.html
index 306f5d9f..5748bc2c 100644
--- a/reference/christidis.wheat.uniformity.html
+++ b/reference/christidis.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>christidis.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Two blocks, 24 rows each. In block A, each 90-foot row was divided into
 12 units, each unit 7.5 feet long. Rows were 8 inches wide.</p>
 <p>Field width: 12 units * 7.5 feet = 90 feet</p>
@@ -99,7 +85,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">christidis.wheat.uniformity</span><span class="op">)</span></span></span>
@@ -108,14 +94,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># sum(dat$yield) # Matches Christidis</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span> <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span> <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span>  <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span> <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span>  <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>         flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">16</span><span class="op">/</span><span class="fl">90</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"christidis.wheat.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index b2340205..986ad595 100644
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@@ -1,56 +1,42 @@
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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+
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Soil resistivity in a field</h1>
-      
+
       <div class="d-none name"><code>cleveland.soil.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>track</code></dt>
 <dd><p>Track number</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,7 +80,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cleveland.soil</span><span class="op">)</span></span></span>
@@ -133,10 +119,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                 <span class="va">fit1</span><span class="op">/</span><span class="fl">100</span>, alpha<span class="op">=</span><span class="fl">0.9</span>, col<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/rep.html" class="external-link">rep</a></span><span class="op">(</span><span class="st">"wheat"</span>, <span class="fu"><a href="https://rdrr.io/r/base/length.html" class="external-link">length</a></span><span class="op">(</span><span class="va">fit1</span><span class="op">)</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                 front<span class="op">=</span><span class="st">"fill"</span>, back<span class="op">=</span><span class="st">"fill"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">close3d</span><span class="op">(</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -145,14 +131,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/cochran.beets.html b/reference/cochran.beets.html
index 04b19b1a..b6535ef1 100644
--- a/reference/cochran.beets.html
+++ b/reference/cochran.beets.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield and number of plants in a sugarbeet fertilizer experiment."><title>Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets"><meta property="og:description" content="Yield and number of plants in a sugarbeet fertilizer experiment."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets"><meta name="description" content="Yield and number of plants in a sugarbeet fertilizer experiment."><meta property="og:description" content="Yield and number of plants in a sugarbeet fertilizer experiment."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Yield and number of plants in a sugarbeet fertilizer experiment</h1>
-      
+
       <div class="d-none name"><code>cochran.beets.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>plants</code></dt>
 <dd><p>number of plants per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.beets</span><span class="op">)</span></span></span>
@@ -111,10 +97,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">plants</span><span class="op">|</span><span class="va">fert</span>, <span class="va">dat</span>, main<span class="op">=</span><span class="st">"cochran.beets"</span><span class="op">)</span> </span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -123,14 +109,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/cochran.bib.html b/reference/cochran.bib.html
index c520855f..ed843dfc 100644
--- a/reference/cochran.bib.html
+++ b/reference/cochran.bib.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn, balanced incomplete block design</h1>
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       <div class="d-none name"><code>cochran.bib.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds/plot</p></dd>
 
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     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -91,7 +77,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -115,10 +101,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">nlme</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">m2</span> <span class="op">=</span> <span class="fu">lme</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="op">-</span><span class="fl">1</span> <span class="op">+</span> <span class="va">gen</span>, data<span class="op">=</span><span class="va">dat</span>, random<span class="op">=</span><span class="op">~</span><span class="fl">1</span><span class="op">|</span><span class="va">loc</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -127,14 +113,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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index 8468989f..9ce655db 100644
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-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Potato scab infection with sulfur treatments</h1>
-      
+
       <div class="d-none name"><code>cochran.crd.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -82,7 +68,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   Control, plus spring and fall application of 300, 600, 1200 pounds/acre of
   sulfur.  The response variable was infection as a percent of the surface
   area covered with scab.  A completely randomized design was used with 8
-  replications of the control and 4 replications of the other treatments.</p>  
+  replications of the control and 4 replications of the other treatments.</p>
 <p>Although the original analysis did not show significant differences in
   the sulfur treatments, including a polynomial trend in the model
   uncovered significant differences (Tamura, 1988).</p>
@@ -97,13 +83,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>Tamura, R.N. and Nelson, L.A. and Naderman, G.C., (1988).
   An investigation of the validity and usefulness of
   trend analysis for field plot data.
-  <em>Agronomy Journal</em>, 80, 712-718.</p>  
+  <em>Agronomy Journal</em>, 80, 712-718.</p>
 <p>https://doi.org/10.2134/agronj1988.00021962008000050003x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.crd</span><span class="op">)</span></span></span>
@@ -111,7 +97,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Field plan</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">inf</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">inf</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"cochran.crd"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -127,10 +113,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m2</span>, split<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>trt<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span><span class="st">"Control vs Sulf"</span><span class="op">=</span><span class="fl">1</span>, <span class="st">"Fall vs Spring"</span><span class="op">=</span><span class="fl">2</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/cochran.eelworms.html b/reference/cochran.eelworms.html
index b0e5ecbb..e2ef2b58 100644
--- a/reference/cochran.eelworms.html
+++ b/reference/cochran.eelworms.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Counts of eelworms before and after fumigant treatments"><title>Counts of eelworms before and after fumigant treatments — cochran.eelworms • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Counts of eelworms before and after fumigant treatments — cochran.eelworms"><meta property="og:description" content="Counts of eelworms before and after fumigant treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Counts of eelworms before and after fumigant treatments — cochran.eelworms • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Counts of eelworms before and after fumigant treatments — cochran.eelworms"><meta name="description" content="Counts of eelworms before and after fumigant treatments"><meta property="og:description" content="Counts of eelworms before and after fumigant treatments"><meta property="og:image" content="/logo.png"></head><body>
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-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Counts of eelworms before and after fumigant treatments</h1>
-      
+
       <div class="d-none name"><code>cochran.eelworms.Rd</code></div>
     </div>
 
@@ -91,15 +77,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weeds</code></dt>
 <dd><p>ratio of weeds to total oats</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>A soil fumigation experiment on Spring Oats, conducted in 1935.</p>  
+
+<p>A soil fumigation experiment on Spring Oats, conducted in 1935.</p>
 <p>Each plot is 30 links x 41.7 links, but it is not clear which side of
-  the plot has a specific length.</p>  
+  the plot has a specific length.</p>
 <p>Treatment codes: Con = Control, Chl = Chlorodinitrobenzen, Cym =
   Cymag, Car = Carbon Disulphide jelly, See = Seekay.</p>
 <p>Experiment was conducted in 1935 at Rothamsted Experiment Station.  In
@@ -111,12 +97,12 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   yields, due partly to the nitrogen in the fumigant, while "Chl"
   decreased the yield.  All fumigants reduced weeds. The crop was
   'unusually weedy'. "Car" and "See" decreased the number of eelworm
-  cysts in the soil.</p>  
+  cysts in the soil.</p>
 <p>The original data can be found in the Rothamsted Report. The report
   notes the position of the blocks in the field were slightly different
-  than shown.</p>  
+  than shown.</p>
 <p>The experiment plan shown in Bailey (2008, p. 73), shows columns 9-11
-  shifted slightly upward. It is not clear why.</p>  
+  shifted slightly upward. It is not clear why.</p>
 <p>Thanks to U.Genschel for identifying a typo.</p>
     </div>
     <div class="section level2">
@@ -135,7 +121,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.eelworms</span><span class="op">)</span></span></span>
@@ -147,10 +133,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"cochran.eelworms"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">fumigant</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, text<span class="op">=</span><span class="va">dose</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, cex<span class="op">=</span><span class="fl">2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">fumigant</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, text<span class="op">=</span><span class="va">dose</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, cex<span class="op">=</span><span class="fl">2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># Very strong spatial trends</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">initial</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">initial</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"cochran.eelworms"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -167,10 +153,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/Log.html" class="external-link">log</a></span><span class="op">(</span><span class="va">final</span><span class="op">)</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="va">trt</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/base/Log.html" class="external-link">log</a></span><span class="op">(</span><span class="va">initial</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -179,14 +165,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/cochran.factorial.html b/reference/cochran.factorial.html
index 58f23e99..c4c1dbb0 100644
--- a/reference/cochran.factorial.html
+++ b/reference/cochran.factorial.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Factorial experiment of beans, 2x2x2x2."><title>Factorial experiment of beans, 2x2x2x2 — cochran.factorial • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Factorial experiment of beans, 2x2x2x2 — cochran.factorial"><meta property="og:description" content="Factorial experiment of beans, 2x2x2x2."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Factorial experiment of beans, 2x2x2x2 — cochran.factorial • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Factorial experiment of beans, 2x2x2x2 — cochran.factorial"><meta name="description" content="Factorial experiment of beans, 2x2x2x2."><meta property="og:description" content="Factorial experiment of beans, 2x2x2x2."><meta property="og:image" content="/logo.png"></head><body>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Factorial experiment of beans, 2x2x2x2</h1>
-      
+
       <div class="d-none name"><code>cochran.factorial.Rd</code></div>
     </div>
 
@@ -89,12 +75,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>k</code></dt>
 <dd><p>potassium treatment, 2 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Conducted by Rothamsted Experiment Station in 1936.</p>
-<p>There were 4 treatment factors:</p>  
+<p>There were 4 treatment factors:</p>
 <p>2 d dung levels: None, 10 tons/acre.</p>
 <p>2 n nitrochalk levels: None, 0.4 hundredweight nitrogen per acre.</p>
 <p>2 p superphosphate levels: None, 0.6 hundredweight per acre</p>
@@ -109,7 +95,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.factorial</span><span class="op">)</span></span></span>
@@ -128,10 +114,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu">MEPlot</span><span class="op">(</span><span class="va">m1</span>, select<span class="op">=</span><span class="fl">3</span><span class="op">:</span><span class="fl">6</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"cochran.factorial - main effects plot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -140,14 +126,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/cochran.latin.html b/reference/cochran.latin.html
index 8f97f52e..4b332cd0 100644
--- a/reference/cochran.latin.html
+++ b/reference/cochran.latin.html
@@ -1,62 +1,48 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Six wheat plots were sampled by six operators and shoot heights
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Latin square design in wheat — cochran.latin • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Latin square design in wheat — cochran.latin"><meta name="description" content="Six wheat plots were sampled by six operators and shoot heights
   measured. The operators sampled plots in six ordered sequences.
   The dependent variate was the difference between measured
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+  height and true height of the plot."><meta property="og:description" content="Six wheat plots were sampled by six operators and shoot heights
   measured. The operators sampled plots in six ordered sequences.
   The dependent variate was the difference between measured
-  height and true height of the plot."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Latin square design in wheat</h1>
-      
+
       <div class="d-none name"><code>cochran.latin.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>diff</code></dt>
 <dd><p>difference between measured height and true height</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
@@ -92,14 +78,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.latin</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">cochran.latin</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">diff</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">diff</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">operator</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"cochran.latin"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -108,10 +94,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">aov.dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">diff</span> <span class="op">~</span> <span class="va">operator</span> <span class="op">+</span> <span class="fu">Error</span><span class="op">(</span><span class="va">rf</span><span class="op">*</span><span class="va">cf</span><span class="op">)</span>, <span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">aov.dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/model.tables.html" class="external-link">model.tables</a></span><span class="op">(</span><span class="va">aov.dat</span>, type<span class="op">=</span><span class="st">"means"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 0d9f986e..ebfac8eb 100644
--- a/reference/cochran.lattice.html
+++ b/reference/cochran.lattice.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Balanced lattice experiment in cotton</h1>
-      
+
       <div class="d-none name"><code>cochran.lattice.Rd</code></div>
     </div>
 
@@ -80,11 +66,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>trt</code></dt>
 <dd><p>treatment factor</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The experiment is a balanced lattice square with 16 treatments in a 4x4
   layout in each of 5 replicates.  The treatments were applied to cotton
@@ -97,17 +83,17 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
+
 
 <p>William G. Cochran, Gertrude M. Cox. <em>Experimental Designs</em>, 2nd
   Edition. Page 490.</p>
 <p>Originally from: F. M. Wadley (1946).
   Incomplete block designs in insect population problems.
-  <em>J. Economic Entomology</em>, 38, 651--654.</p>
+  <em>J. Economic Entomology</em>, 38, 651–654.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>Walter Federer.
   Combining Standard Block Analyses With Spatial Analyses Under a Random
@@ -117,14 +103,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.lattice</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">cochran.lattice</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">y</span><span class="op">~</span><span class="va">row</span><span class="op">*</span><span class="va">col</span><span class="op">|</span><span class="va">rep</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">y</span><span class="op">~</span><span class="va">row</span><span class="op">*</span><span class="va">col</span><span class="op">|</span><span class="va">rep</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">trt</span>, <span class="co"># aspect unknown, should be 2 or .5</span></span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"cochran.lattice"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -135,10 +121,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span>  <span class="fu">lmer</span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">trt</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">rep</span><span class="op">)</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">rep</span><span class="op">:</span><span class="va">row</span><span class="op">)</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">rep</span><span class="op">:</span><span class="va">col</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -147,14 +133,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/cochran.wireworms.html b/reference/cochran.wireworms.html
index 25ac634f..325f37ca 100644
--- a/reference/cochran.wireworms.html
+++ b/reference/cochran.wireworms.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Wireworms controlled by fumigants in a latin square"><title>Wireworms controlled by fumigants in a latin square — cochran.wireworms • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wireworms controlled by fumigants in a latin square — cochran.wireworms"><meta property="og:description" content="Wireworms controlled by fumigants in a latin square"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Wireworms controlled by fumigants in a latin square — cochran.wireworms • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wireworms controlled by fumigants in a latin square — cochran.wireworms"><meta name="description" content="Wireworms controlled by fumigants in a latin square"><meta property="og:description" content="Wireworms controlled by fumigants in a latin square"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Wireworms controlled by fumigants in a latin square</h1>
-      
+
       <div class="d-none name"><code>cochran.wireworms.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>worms</code></dt>
 <dd><p>count of wireworms per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -85,14 +71,14 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>W. G. Cochran (1938).
   Some difficulties in the statistical analysis of replicated experiments.
-  <em>Empire Journal of Experimental Agriculture</em>, 6, 157--175.</p>
+  <em>Empire Journal of Experimental Agriculture</em>, 6, 157–175.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Ron Snee (1980). Graphical Display of Means.
   <em>The American Statistician</em>, 34, 195-199.
-  https://www.jstor.org/stable/2684060 
-  https://doi.org/10.1080/00031305.1980.10483028</p>  
+  https://www.jstor.org/stable/2684060
+  https://doi.org/10.1080/00031305.1980.10483028</p>
 <p>W. Cochran (1940). The analysis of variance when experimental errors
   follow the Poisson or binomial laws.
   <em>The Annals of Mathematical Statistics</em>, 11, 335-347.
@@ -103,14 +89,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cochran.wireworms</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">cochran.wireworms</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">worms</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">worms</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"cochran.wireworms"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -138,10 +124,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## trtN   1.9028     0.2142   8.881  &lt; 2e-16 ***</span></span></span>
 <span class="r-in"><span><span class="co">## trtO   1.7147     0.2275   7.537 4.80e-14 ***</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/connolly.potato.html b/reference/connolly.potato.html
index 96781375..c6338f45 100644
--- a/reference/connolly.potato.html
+++ b/reference/connolly.potato.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Potato yields in single-drill plots"><title>Potato yields in single-drill plots — connolly.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Potato yields in single-drill plots — connolly.potato"><meta property="og:description" content="Potato yields in single-drill plots"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Potato yields in single-drill plots — connolly.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Potato yields in single-drill plots — connolly.potato"><meta name="description" content="Potato yields in single-drill plots"><meta property="og:description" content="Potato yields in single-drill plots"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Potato yields in single-drill plots</h1>
-      
+
       <div class="d-none name"><code>connolly.potato.Rd</code></div>
     </div>
 
@@ -83,11 +69,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>matur</code></dt>
 <dd><p>maturity group</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Connolly et el use this data to illustrate how yield can be affected
   by competition from neighboring plots.</p>
@@ -122,7 +108,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Field plan</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">rep</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"connolly.potato yields (reps not contiguous)"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="connolly.potato-1.png" alt="" width="700" height="433"></span>
@@ -196,7 +182,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -205,14 +191,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/coombs.rice.uniformity.html b/reference/coombs.rice.uniformity.html
index 2468e082..8103195b 100644
--- a/reference/coombs.rice.uniformity.html
+++ b/reference/coombs.rice.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of rice in Malaysia"><title>Uniformity trial of rice in Malaysia — coombs.rice.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of rice in Malaysia — coombs.rice.uniformity"><meta property="og:description" content="Uniformity trial of rice in Malaysia"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of rice in Malaysia — coombs.rice.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of rice in Malaysia — coombs.rice.uniformity"><meta name="description" content="Uniformity trial of rice in Malaysia"><meta property="og:description" content="Uniformity trial of rice in Malaysia"><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of rice in Malaysia</h1>
-      
+
       <div class="d-none name"><code>coombs.rice.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield in gantangs per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>Estimated harvest date is 1915 or earlier.</p>  
-<p>Field length, 18 plots * 1/2 chain.</p>  
+    <p>Estimated harvest date is 1915 or earlier.</p>
+<p>Field length, 18 plots * 1/2 chain.</p>
 <p>Field width, 3 plots * 1/2 chain.</p>
     </div>
     <div class="section level2">
@@ -96,7 +82,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">coombs.rice.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">coombs.rice.uniformity</span></span></span>
@@ -109,13 +95,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/qqmath.html" class="external-link">qqmath</a></span><span class="op">(</span> <span class="op">~</span> <span class="va">yield</span>, <span class="va">dat</span><span class="op">)</span> <span class="co"># weird</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"coombs.rice.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">18</span> <span class="op">/</span> <span class="fl">3</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/cornelius.maize.html b/reference/cornelius.maize.html
index bee273a5..421850c3 100644
--- a/reference/cornelius.maize.html
+++ b/reference/cornelius.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Maize yields for 9 cultivars at 20 locations."><title>Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize"><meta property="og:description" content="Maize yields for 9 cultivars at 20 locations."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize"><meta name="description" content="Maize yields for 9 cultivars at 20 locations."><meta property="og:description" content="Maize yields for 9 cultivars at 20 locations."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize for 9 cultivars at 20 locations.</h1>
-      
+
       <div class="d-none name"><code>cornelius.maize.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cornelius.maize</span><span class="op">)</span></span></span>
@@ -169,10 +155,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## [1] 0.0000 0.2934 0.1513 0.0461 0.2817 # Forkman: .00 .296 .148 .047 .285</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -181,14 +167,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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-  
 
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diff --git a/reference/corsten.interaction.html b/reference/corsten.interaction.html
index bceb08f3..0251f562 100644
--- a/reference/corsten.interaction.html
+++ b/reference/corsten.interaction.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="The data is the yield (kg/acre) of 20 genotypes of corn at 7
-  locations."><title>Multi-environment trial of corn — corsten.interaction • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn — corsten.interaction"><meta property="og:description" content="The data is the yield (kg/acre) of 20 genotypes of corn at 7
-  locations."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of corn — corsten.interaction • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn — corsten.interaction"><meta name="description" content="The data is the yield (kg/acre) of 20 genotypes of corn at 7
+  locations."><meta property="og:description" content="The data is the yield (kg/acre) of 20 genotypes of corn at 7
+  locations."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn</h1>
-      
+
       <div class="d-none name"><code>corsten.interaction.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,13 +74,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>L C A Corsten and J B Denis, (1990).
   Structuring Interaction in Two-Way Tables By Clustering.
-  Biometrics, 46, 207--215. Table 1.
+  Biometrics, 46, 207–215. Table 1.
   https://doi.org/10.2307/2531644</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">corsten.interaction</span><span class="op">)</span></span></span>
@@ -112,10 +98,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># columns _independently_ of each other.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/heatmap.html" class="external-link">heatmap</a></span><span class="op">(</span><span class="va">dmat</span>, main<span class="op">=</span><span class="st">"corsten.interaction"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/cox.stripsplit.html b/reference/cox.stripsplit.html
index 8c53f569..59e84fe3 100644
--- a/reference/cox.stripsplit.html
+++ b/reference/cox.stripsplit.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Strip-split-plot of barley with fertilizer, calcium, and soil factors."><title>Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit"><meta property="og:description" content="Strip-split-plot of barley with fertilizer, calcium, and soil factors."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Strip-split-plot of barley with fertilizer, calcium, and soil factors.</h1>
-      
+
       <div class="d-none name"><code>cox.stripsplit.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield of winter barley</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,7 +85,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cox.stripsplit</span><span class="op">)</span></span></span>
@@ -146,10 +132,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 8 fert:soil:calcium    0.3504   6 24.0000         1  0.9027</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -158,14 +144,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 0dc20183..5b3afd71 100644
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Cucumber yields and quantitative traits</h1>
-      
+
       <div class="d-none name"><code>cramer.cucumber.Rd</code></div>
     </div>
 
@@ -92,7 +78,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>earlyfruit</code></dt>
 <dd><p>early fruit number</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -117,7 +103,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cramer.cucumber</span><span class="op">)</span></span></span>
@@ -208,10 +194,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## nodesperbranch            0.65       0.63          0.58</span></span></span>
 <span class="r-in"><span>  <span class="co">## perfenod                 -0.08      -0.08         -0.07</span></span></span>
 <span class="r-in"><span>  <span class="co">## fruitset                  0.42       0.41          0.37</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -220,14 +206,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/crampton.pig.html b/reference/crampton.pig.html
index fa2b4ff1..8f88c847 100644
--- a/reference/crampton.pig.html
+++ b/reference/crampton.pig.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Weight gain in pigs for different treatments, with initial weight and
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-  feed eaten as covariates."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Weight gain in pigs for different treatments — crampton.pig • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight gain in pigs for different treatments — crampton.pig"><meta name="description" content="Weight gain in pigs for different treatments, with initial weight and
+  feed eaten as covariates."><meta property="og:description" content="Weight gain in pigs for different treatments, with initial weight and
+  feed eaten as covariates."><meta property="og:image" content="/logo.png"></head><body>
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-    
 
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Weight gain in pigs for different treatments</h1>
-      
+
       <div class="d-none name"><code>crampton.pig.Rd</code></div>
     </div>
 
@@ -83,12 +69,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight2</code></dt>
 <dd><p>final weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>A study of the effect of initial weight and feed eaten on the weight
   gaining ability of pigs with different feed treatments.</p>
 <p>The data are extracted from Ostle. It is not clear that 'replicate' is
@@ -112,7 +98,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -135,10 +121,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Remove treatment, test this nested model for significant treatments</span></span></span>
 <span class="r-in"><span>  <span class="va">m3</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">weight2</span> <span class="op">~</span> <span class="va">rep</span> <span class="op">+</span> <span class="va">weight1</span> <span class="op">+</span> <span class="va">feed</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m2</span>,<span class="va">m3</span><span class="op">)</span> <span class="co"># p-value .07. F=2.34 matches Ostle</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -147,14 +133,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/crossa.wheat.html b/reference/crossa.wheat.html
index 998a2743..6b02a49f 100644
--- a/reference/crossa.wheat.html
+++ b/reference/crossa.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Wheat yields for 18 genotypes at 25 locations"><title>Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat"><meta property="og:description" content="Wheat yields for 18 genotypes at 25 locations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat for 18 genotypes at 25 locations</h1>
-      
+
       <div class="d-none name"><code>crossa.wheat.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield, tons/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -92,7 +78,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   HG. (1991).
   AMMI adjustment for statistical analysis of an
   international wheat yield trial.
-  Theoretical and Applied Genetics, 81, 27--37.
+  Theoretical and Applied Genetics, 81, 27–37.
   https://doi.org/10.1007/BF00226108</p>
     </div>
     <div class="section level2">
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">crossa.wheat</span><span class="op">)</span></span></span>
@@ -142,10 +128,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>            scale<span class="op">=</span><span class="cn">FALSE</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">m2</span>, main<span class="op">=</span><span class="st">"crossa.wheat - GGB biplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -154,14 +140,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/crowder.seeds.html b/reference/crowder.seeds.html
index 6148b2f6..3a8efd0f 100644
--- a/reference/crowder.seeds.html
+++ b/reference/crowder.seeds.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Number of Orobanche seeds tested/germinated for two genotypes and
-  two treatments."><title>Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds"><meta property="og:description" content="Number of Orobanche seeds tested/germinated for two genotypes and
-  two treatments."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds"><meta name="description" content="Number of Orobanche seeds tested/germinated for two genotypes and
+  two treatments."><meta property="og:description" content="Number of Orobanche seeds tested/germinated for two genotypes and
+  two treatments."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
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-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Germination of Orobanche seeds for two genotypes and two treatments.</h1>
-      
+
       <div class="d-none name"><code>crowder.seeds.Rd</code></div>
     </div>
 
@@ -79,16 +65,16 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>n</code></dt>
 <dd><p>Total number of seeds tested</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Egyptian broomrape, <em>orobanche aegyptiaca</em> is a parasitic plant
   family.  The plants have no chlorophyll and grow on the roots of other
   plants.  The seeds remain dormant in soil until certain compounds from
-  living plants stimulate germination.</p>  
+  living plants stimulate germination.</p>
 <p>Two genotypes were studied in the experiment, <em>O. aegyptiaca 73</em>
   and <em>O. aegyptiaca 75</em>.  The seeds were brushed with one of two
   extracts prepared from either a bean plant or cucmber plant.</p>
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>N. E. Breslow and D. G. Clayton. 1993.
   Approximate inference in generalized linear mixed models.
   <em>Journal of the American Statistical Association</em>, 88:9-25.
-  https://doi.org/10.2307/2290687</p>  
+  https://doi.org/10.2307/2290687</p>
 <p>Y. Lee and J. A. Nelder. 1996.
   Hierarchical generalized linear models with discussion.
   <em>J. R. Statist. Soc. B</em>, 58:619-678.</p>
@@ -115,12 +101,12 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">crowder.seeds</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">crowder.seeds</span></span></span>
-<span class="r-in"><span>  <span class="va">m1.glm</span> <span class="op">&lt;-</span> <span class="va">m1.glmm</span> <span class="op">&lt;-</span> <span class="va">m1.bb</span> <span class="op">&lt;-</span> <span class="va">m1.hglm</span> <span class="op">&lt;-</span> <span class="cn">NA</span></span></span>
+<span class="r-in"><span>  <span class="va">m1.glm</span> <span class="op">&lt;-</span> <span class="va">m1.glmm</span> <span class="op">&lt;-</span> <span class="va">m1.glmmtmb</span> <span class="op">&lt;-</span> <span class="va">m1.hglm</span> <span class="op">&lt;-</span> <span class="cn">NA</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># ----- Graphic</span></span></span>
@@ -128,67 +114,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">germ</span><span class="op">/</span><span class="va">n</span><span class="op">~</span><span class="va">gen</span><span class="op">|</span><span class="va">extract</span>, <span class="va">dat</span>, main<span class="op">=</span><span class="st">"crowder.seeds"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="co"># ----- brms</span></span></span>
-<span class="r-in"><span>  <span class="co"># Note, in Emacs brms ends the R process for some reason.</span></span></span>
-<span class="r-in"><span>  <span class="co">## m1.brms &lt;- brms::brm( germ|trials(n)~ gen*extract,</span></span></span>
-<span class="r-in"><span>  <span class="co">##   data = dat,</span></span></span>
-<span class="r-in"><span>  <span class="co">##   family = binomial,</span></span></span>
-<span class="r-in"><span>  <span class="co">##   chains=3, iter=3000, warmup=1000)</span></span></span>
-<span class="r-in"><span>  <span class="co">## summary(m1)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co"># ----- GLM.</span></span></span>
-<span class="r-in"><span>  <span class="co"># family=binomial() fixes dispersion at 1</span></span></span>
-<span class="r-in"><span>  <span class="co"># family=quasibinomial() estimates dispersion, had larger std errors</span></span></span>
-<span class="r-in"><span>  <span class="va">m1.glm</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/glm.html" class="external-link">glm</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>,<span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span></span>
-<span class="r-in"><span>                data<span class="op">=</span><span class="va">dat</span>,</span></span>
-<span class="r-in"><span>                <span class="co">#family="binomial",</span></span></span>
-<span class="r-in"><span>                family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">quasibinomial</a></span><span class="op">(</span><span class="op">)</span></span></span>
-<span class="r-in"><span>                <span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.glm</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># --- GLMM.  Assumes Gaussian random effects</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">MASS</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">m1.glmm</span> <span class="op">&lt;-</span> <span class="fu">glmmPQL</span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>, <span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>, random<span class="op">=</span> <span class="op">~</span><span class="fl">1</span><span class="op">|</span><span class="va">plate</span>,</span></span>
 <span class="r-in"><span>                     family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.glmm</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co"># ----- HGML package. Beta-binomial with beta-distributed random effects</span></span></span>
-<span class="r-in"><span>   <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">hglm</span><span class="op">)</span></span></span>
-<span class="r-in"><span>   <span class="va">m1.hglm</span> <span class="op">&lt;-</span> <span class="fu">hglm</span><span class="op">(</span>fixed<span class="op">=</span> <span class="va">germ</span><span class="op">/</span><span class="va">n</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/base/AsIs.html" class="external-link">I</a></span><span class="op">(</span><span class="va">gen</span><span class="op">==</span><span class="st">"O75"</span><span class="op">)</span><span class="op">*</span><span class="va">extract</span>, weights<span class="op">=</span><span class="va">n</span>, data<span class="op">=</span><span class="va">dat</span>,</span></span>
-<span class="r-in"><span>                   random<span class="op">=</span><span class="op">~</span><span class="fl">1</span><span class="op">|</span><span class="va">plate</span>, family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span><span class="op">)</span>, rand.family<span class="op">=</span><span class="fu">Beta</span><span class="op">(</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>                   fix.disp<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>    <span class="co"># ----- INLA package. See: https://haakonbakka.bitbucket.io/btopic102.html</span></span></span>
-<span class="r-in"><span>    <span class="co"># libs(INLA)</span></span></span>
-<span class="r-in"><span>    <span class="co"># gen,extract are fixed. plate is a random effect</span></span></span>
-<span class="r-in"><span>    <span class="co"># Priors for hyper parameters. See: inla.doc("pc.prec")</span></span></span>
-<span class="r-in"><span>    <span class="co"># hyper1 = list(theta = list(prior="pc.prec", param=c(1,0.01)))</span></span></span>
-<span class="r-in"><span>    <span class="co"># m1.inla = inla(germ ~ gen*extract + f(plate, model="iid", hyper=hyper1),</span></span></span>
-<span class="r-in"><span>    <span class="co">#                data=crowder.seeds, </span></span></span>
-<span class="r-in"><span>    <span class="co">#                family="binomial", Ntrials=n, </span></span></span>
-<span class="r-in"><span>    <span class="co">#                control.family=list(control.link=list(model="logit")))</span></span></span>
-<span class="r-in"><span>    </span></span>
-<span class="r-in"><span>  <span class="co"># Compare coefficients</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co"># round(  summary(m1.brms)$fixed[,1:4] , 2)</span></span></span>
-<span class="r-in"><span>  <span class="co">#                        Estimate Est.Error l-95</span></span></span>
-<span class="r-in"><span>  <span class="co"># Intercept                 -0.42      0.18    -0.77    -0.06</span></span></span>
-<span class="r-in"><span>  <span class="co"># genO75                    -0.14      0.22    -0.56     0.29</span></span></span>
-<span class="r-in"><span>  <span class="co"># extractcucumber            0.55      0.25     0.07     1.05</span></span></span>
-<span class="r-in"><span>  <span class="co"># genO75:extractcucumber     0.77      0.30     0.18     1.36</span></span></span>
-<span class="r-in"><span> </span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="co">## round(summary(m1.glm)$coef,2)</span></span></span>
-<span class="r-in"><span>  <span class="co">##                        Estimate Std. Error t value Pr(&gt;|t|)</span></span></span>
-<span class="r-in"><span>  <span class="co">## (Intercept)               -0.41       0.25   -1.64     0.12</span></span></span>
-<span class="r-in"><span>  <span class="co">## genO75                    -0.15       0.30   -0.48     0.64</span></span></span>
-<span class="r-in"><span>  <span class="co">## extractcucumber            0.54       0.34    1.58     0.13</span></span></span>
-<span class="r-in"><span>  <span class="co">## genO75:extractcucumber     0.78       0.42    1.86     0.08</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co">## round(summary(m1.glmm)$tTable,2)</span></span></span>
 <span class="r-in"><span>  <span class="co">##                        Value Std.Error DF t-value p-value</span></span></span>
 <span class="r-in"><span>  <span class="co">## (Intercept)            -0.44      0.25 17   -1.80    0.09</span></span></span>
@@ -196,164 +126,24 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## extractcucumber         0.52      0.34 17    1.56    0.14</span></span></span>
 <span class="r-in"><span>  <span class="co">## genO75:extractcucumber  0.80      0.42 17    1.88    0.08</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co">## round(summary(m1.bb)$BCoef,2)</span></span></span>
-<span class="r-in"><span>  <span class="co">##                        Estimate Std. Error z value Pr(&gt; |z|)</span></span></span>
-<span class="r-in"><span>  <span class="co">## (Intercept)               -0.44       0.22   -2.04      0.04</span></span></span>
-<span class="r-in"><span>  <span class="co">## genO75                    -0.10       0.27   -0.36      0.72</span></span></span>
-<span class="r-in"><span>  <span class="co">## extractcucumber            0.52       0.30    1.76      0.08</span></span></span>
-<span class="r-in"><span>  <span class="co">## genO75:extractcucumber     0.80       0.38    2.11      0.03</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co">## round(summary(m1.hglm)$FixCoefMat,2)</span></span></span>
-<span class="r-in"><span>  <span class="co">##                                     Estimate Std. Error t-value Pr(&gt;|t|)</span></span></span>
-<span class="r-in"><span>  <span class="co">## (Intercept)                            -0.47       0.24   -1.92     0.08</span></span></span>
-<span class="r-in"><span>  <span class="co">## I(gen == "O75")TRUE                    -0.08       0.31   -0.25     0.81</span></span></span>
-<span class="r-in"><span>  <span class="co">## extractcucumber                         0.51       0.33    1.53     0.16</span></span></span>
-<span class="r-in"><span>  <span class="co">## I(gen == "O75")TRUE:extractcucumber     0.83       0.43    1.92     0.08</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co">## round(m1.inla$summary.fixed,2)</span></span></span>
-<span class="r-in"><span>  <span class="co">##                         mean   sd 0.025quant 0.5quant 0.975quant  mode kld</span></span></span>
-<span class="r-in"><span>  <span class="co">## (Intercept)            -0.46 0.24      -0.94    -0.45      -0.01 -0.45   0</span></span></span>
-<span class="r-in"><span>  <span class="co">## genO75                 -0.09 0.30      -0.67    -0.10       0.52 -0.11   0</span></span></span>
-<span class="r-in"><span>  <span class="co">## extractcucumber         0.53 0.32      -0.12     0.53       1.17  0.53   0</span></span></span>
-<span class="r-in"><span>  <span class="co">## genO75:extractcucumber  0.82 0.42       0.01     0.82       1.66  0.81   0</span></span></span>
-<span class="r-in"><span>    </span></span>
-<span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co"># ----- Stan using pre-built models from rstanarm</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">tidyverse</span>, <span class="va">rstan</span>, <span class="va">rstanarm</span>,<span class="va">bayesplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="va">m1.stan</span> <span class="op">&lt;-</span> <span class="fu">stan_glm</span><span class="op">(</span> <span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>,<span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span>,</span></span>
-<span class="r-in"><span>                      data<span class="op">=</span><span class="va">dat</span>,</span></span>
-<span class="r-in"><span>                      family <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span>link<span class="op">=</span><span class="st">"logit"</span><span class="op">)</span>  <span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="co"># summary(m1.stan)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fu">posterior_interval</span><span class="op">(</span><span class="va">m1.stan</span>, prob<span class="op">=</span><span class="fl">.90</span><span class="op">)</span>,<span class="fl">3</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="co">#                            5</span></span></span>
-<span class="r-in"><span>  <span class="co"># (Intercept)            -0.715 -0.111</span></span></span>
-<span class="r-in"><span>  <span class="co"># genO75                 -0.512  0.228</span></span></span>
-<span class="r-in"><span>  <span class="co"># extractcucumber         0.123  0.977</span></span></span>
-<span class="r-in"><span>  <span class="co"># genO75:extractcucumber  0.248  1.284</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">bayesplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu">mcmc_areas</span><span class="op">(</span><span class="va">m1.stan</span>, prob <span class="op">=</span> <span class="fl">0.9</span><span class="op">)</span> <span class="op">+</span></span></span>
-<span class="r-in"><span>    <span class="fu">ggtitle</span><span class="op">(</span><span class="st">"Posterior distributions"</span>,</span></span>
-<span class="r-in"><span>            <span class="st">"with medians and 95 pct intervals"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="kw">if</span><span class="op">(</span><span class="fl">0</span><span class="op">)</span> <span class="op">{</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="co"># --- rjags version ---</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># JAGS/BUGS.  See https://mathstat.helsinki.fi/openbugs/Examples/Seeds.html</span></span></span>
-<span class="r-in"><span><span class="co"># Germination rate depends on p, which is a logit of a linear predictor</span></span></span>
-<span class="r-in"><span><span class="co"># based on genotype and extract, plus random deviation to intercept</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># To match the output on the BUGS web page, use: dat$gen=="O73".</span></span></span>
-<span class="r-in"><span><span class="co"># We use dat$gen=="O75" to compare with the parameterization above.</span></span></span>
-<span class="r-in"><span><span class="va">jdat</span> <span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>germ <span class="op">=</span> <span class="va">dat</span><span class="op">$</span><span class="va">germ</span>, n <span class="op">=</span> <span class="va">dat</span><span class="op">$</span><span class="va">n</span>,</span></span>
-<span class="r-in"><span>           root <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">extract</span><span class="op">==</span><span class="st">"cucumber"</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>           gen <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">==</span><span class="st">"O75"</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>           nobs <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/nrow.html" class="external-link">nrow</a></span><span class="op">(</span><span class="va">dat</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="va">jinit</span> <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>int <span class="op">=</span> <span class="fl">0</span>, genO75 <span class="op">=</span> <span class="fl">0</span>, extcuke <span class="op">=</span> <span class="fl">0</span>, g75ecuke <span class="op">=</span> <span class="fl">0</span>, tau <span class="op">=</span> <span class="fl">10</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># Use logical names (unlike BUGS documentation)</span></span></span>
-<span class="r-in"><span><span class="va">mod.bug</span> <span class="op">=</span></span></span>
-<span class="r-in"><span><span class="st">"model {</span></span></span>
-<span class="r-in"><span><span class="st">  for(i in 1:nobs) {</span></span></span>
-<span class="r-in"><span><span class="st">    germ[i] ~ dbin(p[i], n[i])</span></span></span>
-<span class="r-in"><span><span class="st">    b[i] ~ dnorm(0.0, tau)</span></span></span>
-<span class="r-in"><span><span class="st">    logit(p[i]) &lt;- int + genO75 * gen[i] + extcuke * root[i] +</span></span></span>
-<span class="r-in"><span><span class="st">                   g75ecuke * gen[i] * root[i] + b[i]</span></span></span>
-<span class="r-in"><span><span class="st">  }</span></span></span>
-<span class="r-in"><span><span class="st">  int ~ dnorm(0.0, 1.0E-6)</span></span></span>
-<span class="r-in"><span><span class="st">  genO75 ~ dnorm(0.0, 1.0E-6)</span></span></span>
-<span class="r-in"><span><span class="st">  extcuke ~ dnorm(0.0, 1.0E-6)</span></span></span>
-<span class="r-in"><span><span class="st">  g75ecuke ~ dnorm(0.0, 1.0E-6)</span></span></span>
-<span class="r-in"><span><span class="st">  tau ~ dgamma(0.001, 0.001)</span></span></span>
-<span class="r-in"><span><span class="st">  sigma &lt;- 1 / sqrt(tau)</span></span></span>
-<span class="r-in"><span><span class="st">}"</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">rjags</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="va">oo</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/textconnections.html" class="external-link">textConnection</a></span><span class="op">(</span><span class="va">mod.bug</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="va">j1</span> <span class="op">&lt;-</span> <span class="fu">jags.model</span><span class="op">(</span><span class="va">oo</span>, data<span class="op">=</span><span class="va">jdat</span>, inits<span class="op">=</span><span class="va">jinit</span>, n.chains<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/connections.html" class="external-link">close</a></span><span class="op">(</span><span class="va">oo</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="va">c1</span> <span class="op">&lt;-</span> <span class="fu">coda.samples</span><span class="op">(</span><span class="va">j1</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"int"</span>,<span class="st">"genO75"</span>,<span class="st">"g75ecuke"</span>,<span class="st">"extcuke"</span>,<span class="st">"sigma"</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>                   n.iter<span class="op">=</span><span class="fl">20000</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">c1</span><span class="op">)</span> <span class="co"># Medians are very similar to estimates from hglm</span></span></span>
-<span class="r-in"><span><span class="co"># libs(lucid)</span></span></span>
-<span class="r-in"><span><span class="co"># print(vc(c1),3)</span></span></span>
-<span class="r-in"><span><span class="co">##             Mean    SD    2.5</span></span></span>
-<span class="r-in"><span><span class="co">## extcuke   0.543  0.331 -0.118   0.542   1.2   </span></span></span>
-<span class="r-in"><span><span class="co">## g75ecuke  0.807  0.436 -0.0586  0.802   1.7   </span></span></span>
-<span class="r-in"><span><span class="co">## genO75   -0.0715 0.309 -0.665  -0.0806  0.581 </span></span></span>
-<span class="r-in"><span><span class="co">## int      -0.479  0.241 -0.984  -0.473  -0.0299</span></span></span>
-<span class="r-in"><span><span class="co">## sigma     0.289  0.142  0.0505  0.279   0.596 </span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># Plot observed data with HPD intervals for germination probability</span></span></span>
-<span class="r-in"><span><span class="va">c2</span> <span class="op">&lt;-</span> <span class="fu">coda.samples</span><span class="op">(</span><span class="va">j1</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"p"</span><span class="op">)</span>, n.iter<span class="op">=</span><span class="fl">20000</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="va">hpd</span> <span class="op">&lt;-</span> <span class="fu">HPDinterval</span><span class="op">(</span><span class="va">c2</span><span class="op">)</span><span class="op">[[</span><span class="fl">1</span><span class="op">]</span><span class="op">]</span></span></span>
-<span class="r-in"><span><span class="va">med</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">c2</span>, quantiles<span class="op">=</span><span class="fl">.5</span><span class="op">)</span><span class="op">$</span><span class="va">quantiles</span></span></span>
-<span class="r-in"><span><span class="va">fit</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span><span class="va">med</span>, <span class="va">hpd</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">latticeExtra</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="va">obs</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="fl">1</span><span class="op">:</span><span class="fl">21</span> <span class="op">~</span> <span class="va">germ</span><span class="op">/</span><span class="va">n</span>, <span class="va">dat</span>,</span></span>
-<span class="r-in"><span>               main<span class="op">=</span><span class="st">"crowder.seeds"</span>, ylab<span class="op">=</span><span class="st">"plate"</span>,</span></span>
-<span class="r-in"><span>               col<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">)</span>, pch<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">extract</span>,<span class="fl">1</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="va">obs</span> <span class="op">+</span> <span class="fu">segplot</span><span class="op">(</span><span class="fl">1</span><span class="op">:</span><span class="fl">21</span> <span class="op">~</span> <span class="va">lower</span> <span class="op">+</span> <span class="va">upper</span>, data<span class="op">=</span><span class="va">fit</span>, centers<span class="op">=</span><span class="va">med</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co">## --- R2jags version ---</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="st">"agridat"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="st">"R2jags"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">crowder.seeds</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="co"># To match the output on the BUGS web page, use: dat$gen=="O73".</span></span></span>
-<span class="r-in"><span><span class="co"># We use dat$gen=="O75" to compare with the parameterization above.</span></span></span>
-<span class="r-in"><span><span class="va">jdat</span> <span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>germ <span class="op">=</span> <span class="va">dat</span><span class="op">$</span><span class="va">germ</span>, n <span class="op">=</span> <span class="va">dat</span><span class="op">$</span><span class="va">n</span>,</span></span>
-<span class="r-in"><span>           root <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">extract</span><span class="op">==</span><span class="st">"cucumber"</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>           gen <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">==</span><span class="st">"O75"</span><span class="op">)</span>,</span></span>
-<span class="r-in"><span>           nobs <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/nrow.html" class="external-link">nrow</a></span><span class="op">(</span><span class="va">dat</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="va">jinit</span> <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>int <span class="op">=</span> <span class="fl">0</span>, genO75 <span class="op">=</span> <span class="fl">0</span>, extcuke <span class="op">=</span> <span class="fl">0</span>, g75ecuke <span class="op">=</span> <span class="fl">0</span>, tau <span class="op">=</span> <span class="fl">10</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="va">mod.bug</span> <span class="op">=</span> <span class="kw">function</span><span class="op">(</span><span class="op">)</span> <span class="op">{</span></span></span>
-<span class="r-in"><span>  <span class="kw">for</span><span class="op">(</span><span class="va">i</span> <span class="kw">in</span> <span class="fl">1</span><span class="op">:</span><span class="va">nobs</span><span class="op">)</span> <span class="op">{</span></span></span>
-<span class="r-in"><span>    <span class="va">germ</span><span class="op">[</span><span class="va">i</span><span class="op">]</span> <span class="op">~</span> <span class="fu">dbin</span><span class="op">(</span><span class="va">p</span><span class="op">[</span><span class="va">i</span><span class="op">]</span>, <span class="va">n</span><span class="op">[</span><span class="va">i</span><span class="op">]</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="va">b</span><span class="op">[</span><span class="va">i</span><span class="op">]</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/stats/Normal.html" class="external-link">dnorm</a></span><span class="op">(</span><span class="fl">0.0</span>, <span class="va">tau</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">logit</span><span class="op">(</span><span class="va">p</span><span class="op">[</span><span class="va">i</span><span class="op">]</span><span class="op">)</span> <span class="op">&lt;-</span> <span class="va">int</span> <span class="op">+</span> <span class="va">genO75</span> <span class="op">*</span> <span class="va">gen</span><span class="op">[</span><span class="va">i</span><span class="op">]</span> <span class="op">+</span> <span class="va">extcuke</span> <span class="op">*</span> <span class="va">root</span><span class="op">[</span><span class="va">i</span><span class="op">]</span> <span class="op">+</span></span></span>
-<span class="r-in"><span>      <span class="va">g75ecuke</span> <span class="op">*</span> <span class="va">gen</span><span class="op">[</span><span class="va">i</span><span class="op">]</span> <span class="op">*</span> <span class="va">root</span><span class="op">[</span><span class="va">i</span><span class="op">]</span> <span class="op">+</span> <span class="va">b</span><span class="op">[</span><span class="va">i</span><span class="op">]</span></span></span>
-<span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span>  <span class="va">int</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/stats/Normal.html" class="external-link">dnorm</a></span><span class="op">(</span><span class="fl">0.0</span>, <span class="fl">1.0E-6</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="va">genO75</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/stats/Normal.html" class="external-link">dnorm</a></span><span class="op">(</span><span class="fl">0.0</span>, <span class="fl">1.0E-6</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="va">extcuke</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/stats/Normal.html" class="external-link">dnorm</a></span><span class="op">(</span><span class="fl">0.0</span>, <span class="fl">1.0E-6</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="va">g75ecuke</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/stats/Normal.html" class="external-link">dnorm</a></span><span class="op">(</span><span class="fl">0.0</span>, <span class="fl">1.0E-6</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="va">tau</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/stats/GammaDist.html" class="external-link">dgamma</a></span><span class="op">(</span><span class="fl">0.001</span>, <span class="fl">0.001</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="va">sigma</span> <span class="op">&lt;-</span> <span class="fl">1</span> <span class="op">/</span> <span class="fu"><a href="https://rdrr.io/r/base/MathFun.html" class="external-link">sqrt</a></span><span class="op">(</span><span class="va">tau</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="va">parms</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"int"</span>,<span class="st">"genO75"</span>,<span class="st">"g75ecuke"</span>,<span class="st">"extcuke"</span>,<span class="st">"sigma"</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="va">j1</span> <span class="op">&lt;-</span> <span class="fu">jags</span><span class="op">(</span>data<span class="op">=</span><span class="va">jdat</span>, inits<span class="op">=</span><span class="va">jinit</span>, <span class="va">parms</span>, model.file<span class="op">=</span><span class="va">mod.bug</span>,</span></span>
-<span class="r-in"><span>           n.iter<span class="op">=</span><span class="fl">20000</span>, n.chains<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">j1</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="co">##          mu.vect sd.vect   2.5</span></span></span>
-<span class="r-in"><span><span class="co">## extcuke    0.519   0.325 -0.140  0.325   0.531   0.728   1.158</span></span></span>
-<span class="r-in"><span><span class="co">## g75ecuke   0.834   0.429 -0.019  0.552   0.821   1.101   1.710</span></span></span>
-<span class="r-in"><span><span class="co">## genO75    -0.096   0.305 -0.670 -0.295  -0.115   0.089   0.552</span></span></span>
-<span class="r-in"><span><span class="co">## int       -0.461   0.236 -0.965 -0.603  -0.455  -0.312   0.016</span></span></span>
-<span class="r-in"><span><span class="co">## sigma      0.255   0.148  0.033  0.140   0.240   0.352   0.572</span></span></span>
-<span class="r-in"><span><span class="co">## deviance 103.319   7.489 90.019 98.010 102.770 108.689 117.288</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu">traceplot</span><span class="op">(</span><span class="fu">as.mcmc</span><span class="op">(</span><span class="va">j1</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/histogram.html" class="external-link">densityplot</a></span><span class="op">(</span><span class="fu">as.mcmc</span><span class="op">(</span><span class="va">j1</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu">HPDinterval</span><span class="op">(</span><span class="fu">as.mcmc</span><span class="op">(</span><span class="va">j1</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
-<span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span>  <span class="co"># ----- glmmTMB</span></span></span>
+<span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">glmmTMB</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="va">m1.glmmtmb</span> <span class="op">&lt;-</span> <span class="fu">glmmTMB</span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">germ</span>, <span class="va">n</span><span class="op">-</span><span class="va">germ</span><span class="op">)</span> <span class="op">~</span> <span class="va">gen</span><span class="op">*</span><span class="va">extract</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">plate</span><span class="op">)</span>,</span></span>
+<span class="r-in"><span>                        data<span class="op">=</span><span class="va">dat</span>,</span></span>
+<span class="r-in"><span>                        family<span class="op">=</span><span class="va">binomial</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1.glmmtmb</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="co">## round(summary(m1.glmmtmb)$coefficients$cond , 2)</span></span></span>
+<span class="r-in"><span>  <span class="co">##                        Estimate Std. Error z value Pr(&gt;|z|)</span></span></span>
+<span class="r-in"><span>  <span class="co">## (Intercept)               -0.45       0.22   -2.03     0.04</span></span></span>
+<span class="r-in"><span>  <span class="co">## genO75                    -0.10       0.28   -0.35     0.73</span></span></span>
+<span class="r-in"><span>  <span class="co">## extractcucumber            0.53       0.30    1.74     0.08</span></span></span>
+<span class="r-in"><span>  <span class="co">## genO75:extractcucumber     0.81       0.38    2.11     0.04</span></span></span>
+<span class="r-in"><span> </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -362,14 +152,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/cullis.earlygen.html b/reference/cullis.earlygen.html
index 73c7a2cb..aba90c25 100644
--- a/reference/cullis.earlygen.html
+++ b/reference/cullis.earlygen.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Early generation variety trial in wheat</h1>
-      
+
       <div class="d-none name"><code>cullis.earlygen.Rd</code></div>
     </div>
 
@@ -79,12 +65,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weed</code></dt>
 <dd><p>weed score</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>The data are from a field experiment conducted at Tullibigeal, New
   South Wales, Australia in 1987-88. The aim of these trials is to
   identify and retain the top (10-20 percent) lines for further
@@ -123,7 +109,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">cullis.earlygen</span><span class="op">)</span></span></span>
@@ -132,16 +118,16 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Show field layout of checks.  Cullis Table 1.</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">check</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/ifelse.html" class="external-link">ifelse</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">entry</span> <span class="op">&lt;</span> <span class="fl">8</span>, <span class="va">dat</span><span class="op">$</span><span class="va">entry</span>, <span class="cn">NA</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">check</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">check</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="va">entry</span>, cex<span class="op">=</span><span class="fl">0.5</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">121</span><span class="op">/</span><span class="fl">150</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"cullis.earlygen (yield)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="st">"check"</span>, cex<span class="op">=</span><span class="fl">0.5</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">121</span><span class="op">/</span><span class="fl">150</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"cullis.earlygen (yield)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="va">grays</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"white"</span>,<span class="st">"#252525"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weed</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weed</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          at<span class="op">=</span><span class="fl">0</span><span class="op">:</span><span class="fl">6</span><span class="op">-</span><span class="fl">0.5</span>, col.regions<span class="op">=</span><span class="fu">grays</span><span class="op">(</span><span class="fl">7</span><span class="op">)</span><span class="op">[</span><span class="op">-</span><span class="fl">1</span><span class="op">]</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">121</span><span class="op">/</span><span class="fl">150</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"cullis.earlygen (weed)"</span><span class="op">)</span></span></span>
@@ -177,7 +163,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Now add a nugget variance</span></span></span>
 <span class="r-in"><span>    <span class="va">m4</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m3</span>, random<span class="op">=</span> <span class="op">~</span> <span class="va">gen</span> <span class="op">+</span> <span class="va">units</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m4</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m4</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##       effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##          gen  73780    10420         7.1     P 0  </span></span></span>
 <span class="r-in"><span>    <span class="co">##        units  30440     8073         3.8     P 0.1</span></span></span>
@@ -209,10 +195,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## pairs(dat[ , c('yield','ar1','mg')])</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -221,14 +207,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/damesa.maize.html b/reference/damesa.maize.html
index 429ea7a0..9bafe0b5 100644
--- a/reference/damesa.maize.html
+++ b/reference/damesa.maize.html
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       <img src="../logo.png" class="logo" alt=""><h1>Incomplete-block experiment of maize in Ethiopia.</h1>
-      
+
       <div class="d-none name"><code>damesa.maize.Rd</code></div>
     </div>
 
@@ -89,7 +75,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, t/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -113,11 +99,11 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">damesa.maize</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">damesa.maize</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">damesa.maize</span>,</span></span>
 <span class="r-in"><span>          <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"damesa.maize"</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">block</span>, num<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span></span>
@@ -129,7 +115,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                 fixed <span class="op">=</span> <span class="va">yield</span> <span class="op">~</span> <span class="va">gen</span>,</span></span>
 <span class="r-in"><span>                 random <span class="op">=</span> <span class="op">~</span> <span class="va">site</span> <span class="op">+</span> <span class="va">gen</span><span class="op">:</span><span class="va">site</span> <span class="op">+</span> <span class="fu">at</span><span class="op">(</span><span class="va">site</span><span class="op">)</span><span class="op">:</span><span class="va">rep</span><span class="op">/</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>                 residual <span class="op">=</span> <span class="op">~</span> <span class="fu">dsum</span><span class="op">(</span> <span class="op">~</span> <span class="va">units</span><span class="op">|</span><span class="va">site</span><span class="op">)</span> <span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m0</span><span class="op">)</span> <span class="co"># match Damesa table 1 column 3</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m0</span><span class="op">)</span> <span class="co"># match Damesa table 1 column 3</span></span></span>
 <span class="r-in"><span>    <span class="co">##                 effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##       at(site, S1):rep   0.08819   0.1814     0.49     P 0  </span></span></span>
 <span class="r-in"><span>    <span class="co">##       at(site, S2):rep   1.383     1.426      0.97     P 0  </span></span></span>
@@ -147,10 +133,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">##              site_S4!R   0.1112    0.03665    3        P 0  </span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -159,14 +145,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/darwin.maize.html b/reference/darwin.maize.html
index 9f930823..f5dac9fa 100644
--- a/reference/darwin.maize.html
+++ b/reference/darwin.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Darwin's maize data of crossed/inbred plant heights</h1>
-      
+
       <div class="d-none name"><code>darwin.maize.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>Height, in inches (measured to 1/8 inch)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,8 +80,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
  superior to either parent-form, no precise measurements have been
  given;* and I have met with no observations on the effects of crossing
  and self-fertilising the individuals of the same variety. Moreover,
- experiments of this kind require so much time--mine having been
- continued during eleven years--that they are not likely soon to be
+ experiments of this kind require so much time–mine having been
+ continued during eleven years–that they are not likely soon to be
  repeated."</p>
 <p>Darwin asked his cousin Francis Galton for help in understanding the
   data.  Galton did not have modern statistical methods to approach
@@ -120,7 +106,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -142,10 +128,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 95 percent confidence interval:</span></span></span>
 <span class="r-in"><span>  <span class="co">##  0.003899165 5.229434169</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -154,14 +140,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/dasilva.maize.html b/reference/dasilva.maize.html
index f510a774..4ccc6df0 100644
--- a/reference/dasilva.maize.html
+++ b/reference/dasilva.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of maize with 3 reps."><title>Multi-environment trial of maize — dasilva.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize — dasilva.maize"><meta property="og:description" content="Multi-environment trial of maize with 3 reps."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize</h1>
-      
+
       <div class="d-none name"><code>dasilva.maize.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (tons/hectare)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -108,7 +94,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>J.J. Nuvunga, L.A. Oliveira, A.K.A. Pamplona, C.P. Silva, R.R. Lima
-  and M. Balestre. 
+  and M. Balestre.
   Factor analysis using mixed models of multi-environment trials with
   different levels of unbalancing.
   Genet. Mol. Res. 14.</p>
@@ -151,7 +137,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -160,14 +146,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/dasilva.soybean.uniformity.html b/reference/dasilva.soybean.uniformity.html
index 354ee5c2..bb4eac27 100644
--- a/reference/dasilva.soybean.uniformity.html
+++ b/reference/dasilva.soybean.uniformity.html
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of soybean</h1>
-      
+
       <div class="d-none name"><code>dasilva.soybean.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Field length: 48 rows * .6 m = 28.8 m</p>
 <p>Field width: 24 columns * .6 m = 14.4 m</p>
     </div>
@@ -101,21 +87,21 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">dasilva.soybean.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">dasilva.soybean.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">28.8</span><span class="op">/</span><span class="fl">14.4</span>, </span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"dasilva.soybean.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/davidian.soybean.html b/reference/davidian.soybean.html
index f5d5204a..78adc414 100644
--- a/reference/davidian.soybean.html
+++ b/reference/davidian.soybean.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Growth of soybean varieties in 3 years</h1>
-      
+
       <div class="d-none name"><code>davidian.soybean.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>weight of soybean leaves</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">davidian.soybean</span><span class="op">)</span></span></span>
@@ -172,10 +158,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="fu">augPred</span><span class="op">(</span><span class="va">m3</span><span class="op">)</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">8</span>,<span class="fl">6</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>      main<span class="op">=</span><span class="st">"davidian.soybean - model 3"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span> <span class="co"># end if(0)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -184,14 +170,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/davies.pasture.uniformity.html b/reference/davies.pasture.uniformity.html
index d28fc40b..ef5b01fe 100644
--- a/reference/davies.pasture.uniformity.html
+++ b/reference/davies.pasture.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of pasture in Australia."><title>Uniformity trial of pasture. — davies.pasture.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of pasture. — davies.pasture.uniformity"><meta property="og:description" content="Uniformity trial of pasture in Australia."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of pasture. — davies.pasture.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of pasture. — davies.pasture.uniformity"><meta name="description" content="Uniformity trial of pasture in Australia."><meta property="og:description" content="Uniformity trial of pasture in Australia."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of pasture.</h1>
-      
+
       <div class="d-none name"><code>davies.pasture.uniformity.Rd</code></div>
     </div>
 
@@ -74,18 +60,18 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Conducted at the Waite Agricultural Research Institute in 1928. A
   rectangle 250 x 200 links was selected, divided into 1000 plots
-  measuring 10 x 5 links, that is 1/2000th acre. 
+  measuring 10 x 5 links, that is 1/2000th acre.
   Plots were hand harvested for herbage and air-dried. Cutting began
   Tue, 25 Sep and ended Sat, 29 Sep, by which time 760 plots had been
-  harvested. Rain fell, harvesting ceased.</p>  
+  harvested. Rain fell, harvesting ceased.</p>
 <p>The minimum recommended plot size is 150 square links. The optimum
-  recommended plot size is 450 square links, 5 x 90 links in size.</p>  
+  recommended plot size is 450 square links, 5 x 90 links in size.</p>
 <p>Note, there were 4 digits that were hard to read in the original
   document. Best estimates of these digits were used for the yields of
   the affects plots.  The yields were digitally watermarked with an
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -123,14 +109,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># qqmath( ~ yield, dat) # clearly non-normal, skewed right</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">40</span><span class="op">*</span><span class="fl">5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">19</span><span class="op">*</span><span class="fl">10</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"davies.pasture.uniformity"</span><span class="op">)</span> </span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/day.wheat.uniformity.html b/reference/day.wheat.uniformity.html
index 95164e99..0b83c2f1 100644
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+++ b/reference/day.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>day.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -77,12 +63,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>straw</code></dt>
 <dd><p>straw weight, grams per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>These data are from the Shelbina field of the Missouri Agricultural
   Experiment Station. The field (plat) was about 1/4 acre in area and
   apparently uniform throughout. In the fall of 1912, wheat was drilled
@@ -111,14 +97,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">day.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">day.wheat.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">100</span><span class="op">*</span><span class="fl">8</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">155</span><span class="op">*</span><span class="fl">12</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"day.wheat.uniformity - grain yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -128,7 +114,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># cor(dat$grain, dat$straw) # .9498 # Day calculated 0.9416</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">straw</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">straw</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">100</span><span class="op">*</span><span class="fl">8</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">155</span><span class="op">*</span><span class="fl">12</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"day.wheat.uniformity - straw yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -139,10 +125,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">rowdat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aggregate.html" class="external-link">aggregate</a></span><span class="op">(</span><span class="va">grain</span><span class="op">~</span><span class="va">rowgroup</span>, <span class="va">dat</span>, <span class="va">sum</span><span class="op">)</span> </span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">grain</span> <span class="op">~</span> <span class="va">rowgroup</span>, <span class="va">rowdat</span>, type<span class="op">=</span><span class="st">'l'</span>, ylim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">2500</span>,<span class="fl">6500</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/denis.missing.html b/reference/denis.missing.html
index ff749ae3..c9f257d5 100644
--- a/reference/denis.missing.html
+++ b/reference/denis.missing.html
@@ -1,58 +1,44 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial with structured missing values</h1>
-      
+
       <div class="d-none name"><code>denis.missing.Rd</code></div>
     </div>
 
@@ -73,25 +59,25 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl><p>Used with permission of Jean-Baptists Denis.</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Denis, J. B. and C P Baril, 1992, Sophisticated models with numerous missing
   values: The multiplicative interaction model as an example.
-  Biul. Oceny Odmian, 24--25, 7--31.</p>
+  Biul. Oceny Odmian, 24–25, 7–31.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>H P Piepho, (1999) Stability analysis using the SAS system,
-  Agron Journal, 91, 154--160.
+  Agron Journal, 91, 154–160.
   https://doi.og/10.2134/agronj1999.00021962009100010024x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">denis.missing</span><span class="op">)</span></span></span>
@@ -118,10 +104,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##          G5    G3    G1    G2</span></span></span>
 <span class="r-in"><span><span class="co">## 39.25 22.95 54.36 12.17 23.77</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -130,14 +116,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/denis.ryegrass.html b/reference/denis.ryegrass.html
index 8bc82034..584be09b 100644
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@@ -1,58 +1,44 @@
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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-     
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of perennial ryegrass in France</h1>
-      
+
       <div class="d-none name"><code>denis.ryegrass.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>strength</code></dt>
 <dd><p>average plant strength * 100</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -82,7 +68,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   plants per plot and three plots per location (after adjusting for
   blocking effects).  Each plant was scored on a scale 0-9.</p>
 <p>The original data had a value of 86.0 for genotype G1 at location
-  L4--this was replaced by an additive estimated value of 361.2 as in
+  L4–this was replaced by an additive estimated value of 361.2 as in
   Gower and Hand (1996).</p>
     </div>
     <div class="section level2">
@@ -119,7 +105,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -128,14 +114,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/depalluel.sheep.html b/reference/depalluel.sheep.html
index 719fa0f0..2767f971 100644
--- a/reference/depalluel.sheep.html
+++ b/reference/depalluel.sheep.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Latin square of four breeds of sheep with four diets"><title>Latin square of four breeds of sheep with four diets — depalluel.sheep • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Latin square of four breeds of sheep with four diets — depalluel.sheep"><meta property="og:description" content="Latin square of four breeds of sheep with four diets"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Latin square of four breeds of sheep with four diets — depalluel.sheep • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Latin square of four breeds of sheep with four diets — depalluel.sheep"><meta name="description" content="Latin square of four breeds of sheep with four diets"><meta property="og:description" content="Latin square of four breeds of sheep with four diets"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Latin square of four breeds of sheep with four diets</h1>
-      
+
       <div class="d-none name"><code>depalluel.sheep.Rd</code></div>
     </div>
 
@@ -80,12 +66,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>date</code></dt>
 <dd><p>months after start</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>This may be the earliest known Latin Square experiment.</p>
 <p>Four sheep from each of four breeds were randomized to four feeds and
   four slaughter dates.</p>
@@ -112,7 +98,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -125,10 +111,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">weight</span> <span class="op">~</span> <span class="va">date</span><span class="op">|</span><span class="va">food</span>, <span class="va">dat</span>, group<span class="op">=</span><span class="va">animal</span>, type<span class="op">=</span><span class="st">'l'</span>, auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">4</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>       xlab<span class="op">=</span><span class="st">"Months since start"</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"depalluel.sheep"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/devries.pine.html b/reference/devries.pine.html
index 66f7625c..61a42be8 100644
--- a/reference/devries.pine.html
+++ b/reference/devries.pine.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Graeco-Latin Square experiment in pine</h1>
-      
+
       <div class="d-none name"><code>devries.pine.Rd</code></div>
     </div>
 
@@ -86,7 +72,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>growth</code></dt>
 <dd><p>annual stem volume increment m^3/ha at age 11</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,11 +81,11 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   1965. Each experimental plot was 60m x 60m. Roads 10 m wide run
   between the rows. Each block is thus 180m wide and 200m deep. Data
   were collected only on 40m x 40m plots in the center of each
-  experimental unit. Plots were thinned in 1972 and 1975.  
+  experimental unit. Plots were thinned in 1972 and 1975.
   The two treatment factors (spacing, thinning) were assigned in a
-  Graeco-Latin Square design.</p>  
+  Graeco-Latin Square design.</p>
 <p>Spacing: A=2.5, B=3, C=3.5. Thinning: Z=low, M=medium, S=heavy.</p>
-<p>Field width: 4 blocks x 180 m = 720 m</p>  
+<p>Field width: 4 blocks x 180 m = 720 m</p>
 <p>Field length: 1 block x 200 m = 200 m.</p>
     </div>
     <div class="section level2">
@@ -116,14 +102,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">devries.pine</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">devries.pine</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">volume</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">volume</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"devries.pine - expt design and tree volume"</span>,</span></span>
 <span class="r-in"><span>          col<span class="op">=</span><span class="va">spacing</span>, num<span class="op">=</span><span class="va">thinning</span>, cex<span class="op">=</span><span class="fl">1</span>, out1<span class="op">=</span><span class="va">block</span>, aspect<span class="op">=</span><span class="fl">200</span><span class="op">/</span><span class="fl">720</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -136,10 +122,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>              <span class="va">block</span><span class="op">:</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -148,14 +134,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/digby.jointregression.html b/reference/digby.jointregression.html
index 95376016..2bb7722a 100644
--- a/reference/digby.jointregression.html
+++ b/reference/digby.jointregression.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield of 10 spring wheat varieties for 17 locations in 1976."><title>Multi-environment trial of wheat — digby.jointregression • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat — digby.jointregression"><meta property="og:description" content="Yield of 10 spring wheat varieties for 17 locations in 1976."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of wheat — digby.jointregression • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat — digby.jointregression"><meta name="description" content="Yield of 10 spring wheat varieties for 17 locations in 1976."><meta property="og:description" content="Yield of 10 spring wheat varieties for 17 locations in 1976."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat</h1>
-      
+
       <div class="d-none name"><code>digby.jointregression.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (t/ha)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -96,7 +82,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">digby.jointregression</span><span class="op">)</span></span></span>
@@ -181,10 +167,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fl">1</span> <span class="op">+</span> <span class="fu">ranef</span><span class="op">(</span><span class="va">m1</span><span class="op">)</span><span class="op">$</span><span class="va">`mp gen:env`</span>,<span class="fl">2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -193,14 +179,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 06a58dd2..afdbfea4 100644
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Bodyweight of cows in a 2-by-2 factorial experiment."><title>Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow"><meta property="og:description" content="Bodyweight of cows in a 2-by-2 factorial experiment."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Bodyweight of cows in a 2-by-2 factorial experiment</h1>
-      
+
       <div class="d-none name"><code>diggle.cow.Rd</code></div>
     </div>
 
@@ -76,15 +62,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>day</code></dt>
 <dd><p>Days after birth</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Diggle et al., 1994, pp. 100-101, consider an experiment that studied
   how iron dosing (none/standard) and micro-organism (infected or
-  non-infected) influence the weight of cows.</p>  
+  non-infected) influence the weight of cows.</p>
 <p>Twenty-eight cows were allocated in a 2-by-2 factorial design
   with these factors.  Some calves were inoculated with tuberculosis at six
   weeks of age.  At six months, some calves were maintained on
@@ -106,18 +92,18 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
   intake in Mycobacterium paratuberculosis-infected dairy cattle:
   sequential observations on growth, iron and copper metabolism and
   development of paratuberculosis.
-  <em>Research in veterinary science</em>, 46, 289--296.</p>
+  <em>Research in veterinary science</em>, 46, 289–296.</p>
 <p>Arunas P. Verbyla and Brian R. Cullis and Michael G. Kenward
   and Sue J. Welham, (1999), The analysis of designed experiments and
   longitudinal data by using smoothing splines. <em>Appl. Statist.</em>,
-  48, 269--311.</p>
+  48, 269–311.</p>
 <p>SAS/STAT(R) 9.2 User's Guide, Second Edition.
   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm#statug_glimmix_sect018.htm</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">diggle.cow</span><span class="op">)</span></span></span>
@@ -150,10 +136,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">foo1</span><span class="op">+</span><span class="va">foo2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -162,14 +148,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/draper.safflower.uniformity.html b/reference/draper.safflower.uniformity.html
index 430d384a..1f136882 100644
--- a/reference/draper.safflower.uniformity.html
+++ b/reference/draper.safflower.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of safflower in Arizona in 1958."><title>Uniformity trial of safflower — draper.safflower.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of safflower — draper.safflower.uniformity"><meta property="og:description" content="Uniformity trial of safflower in Arizona in 1958."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of safflower — draper.safflower.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of safflower — draper.safflower.uniformity"><meta name="description" content="Uniformity trial of safflower in Arizona in 1958."><meta property="og:description" content="Uniformity trial of safflower in Arizona in 1958."><meta property="og:image" content="/logo.png"></head><body>
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-    
 
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of safflower</h1>
-      
+
       <div class="d-none name"><code>draper.safflower.uniformity.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot (grams)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiments were conducted at the Agricultural Experiment Station Farm
   at Eloy, Arizona. The crop was harvested in July 1958.</p>
@@ -124,7 +110,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">draper.safflower.uniformity</span><span class="op">)</span></span></span>
@@ -132,11 +118,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat5</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">draper.safflower.uniformity</span>, <span class="va">expt</span><span class="op">==</span><span class="st">"E5"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat4</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat4</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">72</span><span class="op">/</span><span class="fl">53</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"draper.safflower.uniformity (four foot)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat5</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat5</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">90</span><span class="op">/</span><span class="fl">46</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"draper.safflower.uniformity (five foot)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -162,10 +148,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">##                   col="red")$uni</span></span></span>
 <span class="r-in"><span>  <span class="co">## s5 # match Draper table 1, p 21</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -174,14 +160,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/ducker.groundnut.uniformity.html b/reference/ducker.groundnut.uniformity.html
index d53bf273..449f11c0 100644
--- a/reference/ducker.groundnut.uniformity.html
+++ b/reference/ducker.groundnut.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of groundnut</h1>
-      
+
       <div class="d-none name"><code>ducker.groundnut.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -83,9 +69,9 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   in area. Single ridge plots each one chain in length, and one yard
   apart. Two rows of groundnuts are planted per ridge, staggered at 1
   foot between holes. Holes are spaced 18 inches x 12 inches. Two seeds
-  are planted per hole.</p>  
-<p>The yield values are pounds of nuts in shell.</p>  
-<p>Field length: 5 plots, 22 yards each = 110 yards.</p>  
+  are planted per hole.</p>
+<p>The yield values are pounds of nuts in shell.</p>
+<p>Field length: 5 plots, 22 yards each = 110 yards.</p>
 <p>Field width: 44 plots, 1 yard each = 44 yards.</p>
 <p>This data was made available with special help from the staff at
   Rothamsted Research Library.</p>
@@ -102,18 +88,18 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ducker.groundnut.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">ducker.groundnut.uniformity</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">110</span><span class="op">/</span><span class="fl">44</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"ducker.groundnut.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -122,14 +108,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/durban.competition.html b/reference/durban.competition.html
index 418ad4f8..5fb8cb74 100644
--- a/reference/durban.competition.html
+++ b/reference/durban.competition.html
@@ -1,56 +1,42 @@
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Sugar beet yields with competition effects</h1>
-      
+
       <div class="d-none name"><code>durban.competition.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>Root yields, kg/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,7 +74,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   5 and 6, for each set of six plots.  Each genotype was randomly
   allocated once to each pair of plots (1,6), (2,5), (3,4) across the
   three reps.  Wheel effect were not significant in _this_ trial.</p>
-<p>Field width: 18m + 1m guard rows = 19m</p>  
+<p>Field width: 18m + 1m guard rows = 19m</p>
 <p>Field length: 3 blocks * 12m + 2*0.5m spacing = 37m
   Retrieved from
   https://www.ma.hw.ac.uk/~iain/research/JAgSciData/data/Trial1.dat</p>
@@ -98,12 +84,12 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Durban, M., Currie, I. and R. Kempton, 2001.
   Adjusting for fertility and competition in variety trials.
-  J. of Agricultural Science, 136, 129--140.</p>
+  J. of Agricultural Science, 136, 129–140.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -114,7 +100,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/with.html" class="external-link">with</a></span><span class="op">(</span><span class="va">dat</span>, <span class="fu"><a href="https://rdrr.io/r/base/table.html" class="external-link">table</a></span><span class="op">(</span><span class="va">gen</span>,<span class="va">wheel</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">block</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">gen</span>, col<span class="op">=</span><span class="va">wheel</span>, aspect<span class="op">=</span><span class="fl">37</span><span class="op">/</span><span class="fl">19</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"durban.competition"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -138,10 +124,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">res</span><span class="op">~</span><span class="va">comp</span>, <span class="va">dat</span>, type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'p'</span>,<span class="st">'r'</span><span class="op">)</span>, main<span class="op">=</span><span class="st">"durban.competition"</span>,</span></span>
 <span class="r-in"><span>       xlab<span class="op">=</span><span class="st">"Average yield of neighboring plots"</span>, ylab<span class="op">=</span><span class="st">"Residual"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/durban.rowcol.html b/reference/durban.rowcol.html
index 0875af65..8809eb6c 100644
--- a/reference/durban.rowcol.html
+++ b/reference/durban.rowcol.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Row-column experiment of spring barley, many varieties"><title>Row-column experiment of spring barley, many varieties — durban.rowcol • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Row-column experiment of spring barley, many varieties — durban.rowcol"><meta property="og:description" content="Row-column experiment of spring barley, many varieties"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Row-column experiment of spring barley, many varieties — durban.rowcol • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Row-column experiment of spring barley, many varieties — durban.rowcol"><meta name="description" content="Row-column experiment of spring barley, many varieties"><meta property="og:description" content="Row-column experiment of spring barley, many varieties"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Row-column experiment of spring barley, many varieties</h1>
-      
+
       <div class="d-none name"><code>durban.rowcol.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, tonnes/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -86,7 +72,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   (east/west).
   The land sloped downward from row 16 to row 1.  Plot yields were
   converted to tonnes per hectare.</p>
-<p>Plot dimensions are not given.</p>  
+<p>Plot dimensions are not given.</p>
 <p>Used with permission of Maria Durban.</p>
     </div>
     <div class="section level2">
@@ -107,14 +93,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">durban.rowcol</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">durban.rowcol</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">bed</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">bed</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">rep</span>, num<span class="op">=</span><span class="va">gen</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"durban.rowcol"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -174,10 +160,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/cloud.html" class="external-link">wireframe</a></span><span class="op">(</span><span class="va">gamma</span> <span class="op">~</span> <span class="va">x</span><span class="op">*</span><span class="va">y</span>, <span class="va">v7c</span>, aspect<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">.5</span><span class="op">)</span><span class="op">)</span> <span class="co"># Fig 7c</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -186,14 +172,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/durban.splitplot.html b/reference/durban.splitplot.html
index f470d42d..88d51348 100644
--- a/reference/durban.splitplot.html
+++ b/reference/durban.splitplot.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Split-plot experiment of barley with fungicide treatments"><title>Split-plot experiment of barley with fungicide treatments — durban.splitplot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-plot experiment of barley with fungicide treatments — durban.splitplot"><meta property="og:description" content="Split-plot experiment of barley with fungicide treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Split-plot experiment of barley with fungicide treatments — durban.splitplot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-plot experiment of barley with fungicide treatments — durban.splitplot"><meta name="description" content="Split-plot experiment of barley with fungicide treatments"><meta property="og:description" content="Split-plot experiment of barley with fungicide treatments"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-plot experiment of barley with fungicide treatments</h1>
-      
+
       <div class="d-none name"><code>durban.splitplot.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>bed</code></dt>
 <dd><p>bed (column)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,14 +86,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">durban.splitplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">durban.splitplot</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">bed</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">bed</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">fung</span>, num<span class="op">=</span><span class="va">gen</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"durban.splitplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -148,7 +134,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                   resid <span class="op">=</span><span class="op">~</span><span class="fu">ar1v</span><span class="op">(</span><span class="va">rowf</span><span class="op">)</span><span class="op">:</span><span class="fu">ar1</span><span class="op">(</span><span class="va">bedf</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m2a2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m2a2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2a2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2a2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##             effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##              block   0              NA      NA     B  NA</span></span></span>
 <span class="r-in"><span>    <span class="co">##         block:fung   0.01206  0.01512      0.8     P   0</span></span></span>
@@ -161,10 +147,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu">wald</span><span class="op">(</span><span class="va">m2a2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -173,14 +159,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/eden.nonnormal.html b/reference/eden.nonnormal.html
index ef8fe962..d729e39a 100644
--- a/reference/eden.nonnormal.html
+++ b/reference/eden.nonnormal.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Height of barley plants in a study of non-normal data</h1>
-      
+
       <div class="d-none name"><code>eden.nonnormal.Rd</code></div>
     </div>
 
@@ -74,13 +60,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>height of wheat plant</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>This data was used in a very early example of a permutation test.</p>  
+
+<p>This data was used in a very early example of a permutation test.</p>
 <p>Eden &amp; Yates used this data to consider the impact of non-normal data
   on the validity of a hypothesis test that assumes normality.  They
   concluded that the skew data did not negatively affect the analysis of
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">eden.nonnormal</span><span class="op">)</span></span></span>
@@ -195,10 +181,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>            main<span class="op">=</span><span class="st">"Observed (histogram) &amp; theoretical (line) F values"</span><span class="op">)</span> <span class="op">+</span></span></span>
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="op">(</span><span class="fl">10</span><span class="op">/</span><span class="fl">.7</span><span class="op">)</span><span class="op">*</span> <span class="va">yval</span> <span class="op">~</span> <span class="va">xval</span>, type<span class="op">=</span><span class="st">"l"</span>, lwd<span class="op">=</span><span class="fl">2</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -207,14 +193,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/eden.potato.html b/reference/eden.potato.html
index 844c4df7..e5df643f 100644
--- a/reference/eden.potato.html
+++ b/reference/eden.potato.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Potato yields in response to potash and nitrogen fertilizer.
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Potato yields in response to potash and nitrogen fertilizer — eden.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Potato yields in response to potash and nitrogen fertilizer — eden.potato"><meta name="description" content="Potato yields in response to potash and nitrogen fertilizer.
   Data from Fisher's 1929 paper Studies in Crop Variation 6.
-  A different design was used each year."><title>Potato yields in response to potash and nitrogen fertilizer — eden.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Potato yields in response to potash and nitrogen fertilizer — eden.potato"><meta property="og:description" content="Potato yields in response to potash and nitrogen fertilizer.
+  A different design was used each year."><meta property="og:description" content="Potato yields in response to potash and nitrogen fertilizer.
   Data from Fisher's 1929 paper Studies in Crop Variation 6.
-  A different design was used each year."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  A different design was used each year."><meta property="og:image" content="/logo.png"></head><body>
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Potato yields in response to potash and nitrogen fertilizer</h1>
-      
+
       <div class="d-none name"><code>eden.potato.Rd</code></div>
     </div>
 
@@ -94,7 +80,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>ptype</code></dt>
 <dd><p>potash type</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -121,13 +107,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   <em>Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science</em>, 462, 2119--2143.
+    Engineering Science</em>, 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">eden.potato</span><span class="op">)</span></span></span>
@@ -136,7 +122,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># 1925 qualitative</span></span></span>
 <span class="r-in"><span><span class="va">d5a</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">year</span><span class="op">==</span><span class="st">'1925a'</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d5a</span>, <span class="va">trt</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d5a</span>, <span class="va">trt</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">yield</span>, cex<span class="op">=</span><span class="fl">1</span>, shorten<span class="op">=</span><span class="st">'no'</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"eden.potato: 1925 qualitative"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m5a</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">trt</span><span class="op">+</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span><span class="op">+</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, <span class="va">d5a</span><span class="op">)</span><span class="op">)</span> <span class="co"># table 2</span></span></span>
@@ -144,7 +130,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># 1926 qualitative</span></span></span>
 <span class="r-in"><span><span class="va">d6a</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">year</span><span class="op">==</span><span class="st">'1926a'</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d6a</span>, <span class="va">trt</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d6a</span>, <span class="va">trt</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">yield</span>, cex<span class="op">=</span><span class="fl">1</span>, shorten<span class="op">=</span><span class="st">'no'</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"eden.potato: 1926 qualitative"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m6a</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">trt</span><span class="op">+</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span><span class="op">+</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, <span class="va">d6a</span><span class="op">)</span><span class="op">)</span> <span class="co"># table 4</span></span></span>
@@ -152,7 +138,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># 1925 quantitative</span></span></span>
 <span class="r-in"><span><span class="va">d5</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">year</span><span class="op">==</span><span class="st">'1925b'</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d5</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d5</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"eden.potato: 1925 quantitative"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -166,7 +152,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># 1926 quantitative</span></span></span>
 <span class="r-in"><span><span class="va">d6</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">year</span><span class="op">==</span><span class="st">'1926b'</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d6</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d6</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"eden.potato: 1926 quantitative"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m6</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">trt</span><span class="op">+</span><span class="va">block</span>, <span class="va">d6</span><span class="op">)</span><span class="op">)</span> <span class="co"># table 7</span></span></span>
@@ -174,7 +160,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># 1927 qualitative + quantitative</span></span></span>
 <span class="r-in"><span><span class="va">d7</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">year</span><span class="op">==</span><span class="fl">1927</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d7</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d7</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, col<span class="op">=</span><span class="va">ptype</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>      main<span class="op">=</span><span class="st">"eden.potato: 1927 qualitative + quantitative"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -185,10 +171,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu">acast</span><span class="op">(</span><span class="va">me7</span>, <span class="va">potash</span><span class="op">~</span><span class="va">nitro</span>, fun<span class="op">=</span><span class="va">mean</span><span class="op">)</span> <span class="op">*</span> <span class="fl">40</span><span class="op">/</span><span class="fl">2240</span> <span class="co"># English ton = 2240 pounds</span></span></span>
 <span class="r-in"><span><span class="fu">acast</span><span class="op">(</span><span class="va">me7</span>, <span class="va">potash</span><span class="op">~</span><span class="va">ptype</span>, fun<span class="op">=</span><span class="va">mean</span><span class="op">)</span> <span class="op">*</span> <span class="fl">40</span><span class="op">/</span><span class="fl">2240</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -197,14 +183,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/eden.tea.uniformity.html b/reference/eden.tea.uniformity.html
index adace7ae..c45fe874 100644
--- a/reference/eden.tea.uniformity.html
+++ b/reference/eden.tea.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of tea</h1>
-      
+
       <div class="d-none name"><code>eden.tea.uniformity.Rd</code></div>
     </div>
 
@@ -77,19 +63,19 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Tea plucking in Ceylon extended from 20 Apr 1928 to 10 Dec 1929. There
   were 42 pluckings.</p>
-<p>It is not clear what the units are, but the paper mentions "quarter pound".</p>  
-<p>The field was divided into 144 plots of 1/72 acre = 605 sq ft.</p>  
+<p>It is not clear what the units are, but the paper mentions "quarter pound".</p>
+<p>The field was divided into 144 plots of 1/72 acre = 605 sq ft.</p>
 <p>Each plot contained 6 rows of bushes, approximately 42 bushes. (Each
   row was thus about 7 bushes).</p>
-<p>Plots in row 12 were at high on a hillside, plots in row 1 were low on the hill.</p>  
-<p>Note: We will assume the plots are roughly square: 6 rows of 7 bushes.</p>  
-<p>Field width: 12 plots * 24.6 feet = 295 feet</p>  
+<p>Plots in row 12 were at high on a hillside, plots in row 1 were low on the hill.</p>
+<p>Note: We will assume the plots are roughly square: 6 rows of 7 bushes.</p>
+<p>Field width: 12 plots * 24.6 feet = 295 feet</p>
 <p>Field length: 12 plots * 24.6 feet = 295 feet</p>
 <p>Data were typed by K.Wright.
   Although the pdf of the paper had a crease across the page that hid
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -125,14 +111,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"eden.tea.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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+  replicates in each trial."><meta property="og:description" content="Multi-environment trial of oats in 5 locations, 7 years, with 3
+  replicates in each trial."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of oats in United States, 5 locations, 7 years.</h1>
-      
+
       <div class="d-none name"><code>edwards.oats.Rd</code></div>
     </div>
 
@@ -89,22 +75,22 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>testwt</code></dt>
 <dd><p>Test weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>This data comes from a breeding program, but does not have the usual
   pattern of (1) genotypes entering/leaving the program (2) check
-  genotypes that remain throughout the duration of the program.</p>  
+  genotypes that remain throughout the duration of the program.</p>
 <p>Experiments were conducted by the Iowa State University Oat Variety
-  Trial in the years 1997 to 2003.</p>  
+  Trial in the years 1997 to 2003.</p>
 <p>In each year there were 40 genotypes, with about 30 released checks
   and 10 experimental lines. Each genotype appeared in a range of 3 to
   34 of the year-loc combinations.</p>
 <p>The trials were grown in five locations in Iowa:
   Ames, Nashua, Crawfordsville, Lewis, Sutherland.
   In 1998 there was no trial grown at Sutherland.
-  There were 3 blocks in each trial.</p>  
+  There were 3 blocks in each trial.</p>
 <p>Five genotypes were removed from the data because of low yields (and are not included here).</p>
 <p>The environment identifaction values are the same as in Edwards (2006)
   table 1.</p>
@@ -124,7 +110,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">dplyr</span>,<span class="va">lattice</span>, <span class="va">reshape2</span>, <span class="va">stringr</span><span class="op">)</span></span></span>
@@ -164,10 +150,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat2sum</span> <span class="op">&lt;-</span> <span class="fu">summarize</span><span class="op">(</span><span class="va">dat2</span>, stddev <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">y</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">bwplot</a></span><span class="op">(</span><span class="va">stddev</span> <span class="op">~</span> <span class="va">eid</span>, <span class="va">dat2sum</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -176,14 +162,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/engelstad.nitro.html b/reference/engelstad.nitro.html
index 110db91c..3a7baaa8 100644
--- a/reference/engelstad.nitro.html
+++ b/reference/engelstad.nitro.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro"><meta name="description" content="Corn yield response to nitrogen fertilizer for a single variety of
+  corn at two locations over five years"><meta property="og:description" content="Corn yield response to nitrogen fertilizer for a single variety of
+  corn at two locations over five years"><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn with nitrogen fertilizer</h1>
-      
+
       <div class="d-none name"><code>engelstad.nitro.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, quintals/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,7 +81,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Engelstad, OP and Parks, WL.  1971.
   Variability in Optimum N Rates for Corn.
-  <em>Agronomy Journal</em>, 63, 21--23.</p>
+  <em>Agronomy Journal</em>, 63, 21–23.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
@@ -145,7 +131,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -154,14 +140,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/evans.sugarcane.uniformity.html b/reference/evans.sugarcane.uniformity.html
index 838c3862..3a5b6def 100644
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+++ b/reference/evans.sugarcane.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sugarcane</h1>
-      
+
       <div class="d-none name"><code>evans.sugarcane.uniformity.Rd</code></div>
     </div>
 
@@ -74,14 +60,14 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>plot yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>A field of ratoon canes was harvested in 20-hole plots.</p>  
+    <p>A field of ratoon canes was harvested in 20-hole plots.</p>
 <p>Described in a letter to Frank Yates written 21 May 1935.</p>
 <p>Field length: 5 plots x 50 feet (20 stools per plot; 30 inches between stools) = 250 feet</p>
-<p>Field width: 142 plots x 5 feet = 710 feet</p>  
+<p>Field width: 142 plots x 5 feet = 710 feet</p>
 <p>This data was made available with special help from the staff at
   Rothamsted Research Library.</p>
     </div>
@@ -96,19 +82,19 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">evans.sugarcane.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">evans.sugarcane.uniformity</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">5</span><span class="op">*</span><span class="fl">50</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">142</span><span class="op">*</span><span class="fl">5</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"evans.sugarcane.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/table.html" class="external-link">table</a></span><span class="op">(</span> <span class="fu"><a href="https://rdrr.io/r/base/substr.html" class="external-link">substring</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span>,<span class="fl">3</span><span class="op">)</span> <span class="op">)</span> <span class="co"># yields ending in 0,5 are much more common</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -117,14 +103,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/fan.stability.html b/reference/fan.stability.html
index 9ab934d4..fc3fddcd 100644
--- a/reference/fan.stability.html
+++ b/reference/fan.stability.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield of 13 hybrids, grown in 10 locations across 2 years.  Conducted
-  in Yunnan, China."><title>Multi-environment trial of maize hybrids in China — fan.stability • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize hybrids in China — fan.stability"><meta property="og:description" content="Yield of 13 hybrids, grown in 10 locations across 2 years.  Conducted
-  in Yunnan, China."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of maize hybrids in China — fan.stability • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of maize hybrids in China — fan.stability"><meta name="description" content="Yield of 13 hybrids, grown in 10 locations across 2 years.  Conducted
+  in Yunnan, China."><meta property="og:description" content="Yield of 13 hybrids, grown in 10 locations across 2 years.  Conducted
+  in Yunnan, China."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize hybrids in China</h1>
-      
+
       <div class="d-none name"><code>fan.stability.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, Mg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">fan.stability</span><span class="op">)</span></span></span>
@@ -112,10 +98,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Use 0.464 as pooled error from ANOVA.  Calculate yield mean/stability.</span></span></span>
 <span class="r-in"><span><span class="fu">stability.par</span><span class="op">(</span><span class="va">dm</span>, rep<span class="op">=</span><span class="fl">3</span>, MSerror<span class="op">=</span><span class="fl">0.464</span><span class="op">)</span> <span class="co"># Table 5 of Fan et al.</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 59aee0df..613688f9 100644
--- a/reference/federer.diagcheck.html
+++ b/reference/federer.diagcheck.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Wheat experiment augmented with two check varieties in diagonal strips."><title>Wheat experiment with diagonal checks — federer.diagcheck • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat experiment with diagonal checks — federer.diagcheck"><meta property="og:description" content="Wheat experiment augmented with two check varieties in diagonal strips."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Wheat experiment with diagonal checks — federer.diagcheck • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat experiment with diagonal checks — federer.diagcheck"><meta name="description" content="Wheat experiment augmented with two check varieties in diagonal strips."><meta property="og:description" content="Wheat experiment augmented with two check varieties in diagonal strips."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Wheat experiment with diagonal checks</h1>
-      
+
       <div class="d-none name"><code>federer.diagcheck.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Federer, Walter T. 1998. Recovery of interblock, intergradient, and
   intervariety information in incomplete block and lattice rectangle
-  design experiments. Biometrics, 54, 471--481.
+  design experiments. Biometrics, 54, 471–481.
   https://doi.org/10.2307/3109756</p>
     </div>
     <div class="section level2">
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">federer.diagcheck</span><span class="op">)</span></span></span>
@@ -119,7 +105,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Show the layout as in Federer 1998.</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, show.key<span class="op">=</span><span class="cn">FALSE</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          shorten<span class="op">=</span><span class="st">'no'</span>, col<span class="op">=</span><span class="va">check</span>, cex<span class="op">=</span><span class="fl">.8</span>, col.text<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"yellow"</span>,<span class="st">"gray"</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"federer.diagcheck"</span><span class="op">)</span></span></span>
@@ -256,10 +242,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## ##       R!variance   4412          915    4.8     pos</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -268,14 +254,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/federer.tobacco.html b/reference/federer.tobacco.html
index d2cadb6d..7864602c 100644
--- a/reference/federer.tobacco.html
+++ b/reference/federer.tobacco.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="RCB of tobacco, height plants exposed to radiation"><title>RCB of tobacco, height plants exposed to radiation — federer.tobacco • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB of tobacco, height plants exposed to radiation — federer.tobacco"><meta property="og:description" content="RCB of tobacco, height plants exposed to radiation"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>RCB of tobacco, height plants exposed to radiation — federer.tobacco • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB of tobacco, height plants exposed to radiation — federer.tobacco"><meta name="description" content="RCB of tobacco, height plants exposed to radiation"><meta property="og:description" content="RCB of tobacco, height plants exposed to radiation"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB of tobacco, height plants exposed to radiation</h1>
-      
+
       <div class="d-none name"><code>federer.tobacco.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>height of 20 plants, cm</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -90,7 +76,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Walter T Federer and C S Schlottfeldt, 1954.
   The use of covariance to control gradients in experiments.
-  <em>Biometrics</em>, 10, 282--290.
+  <em>Biometrics</em>, 10, 282–290.
   https://doi.org/10.2307/3001881</p>
     </div>
     <div class="section level2">
@@ -104,13 +90,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     Breeders</em>, Haworth Press.</p>
 <p>Paul N Hinz, (1987).
   Nearest-Neighbor Analysis in Practice,
-  <em>Iowa State Journal of Research</em>, 62, 199--217.
+  <em>Iowa State Journal of Research</em>, 62, 199–217.
   https://lib.dr.iastate.edu/iowastatejournalofresearch/vol62/iss2/1</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -126,7 +112,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># RCB residuals show strong spatial trends</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span><span class="op">$</span><span class="va">resid</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/residuals.html" class="external-link">resid</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">resid</span> <span class="op">~</span> <span class="va">row</span> <span class="op">*</span> <span class="va">block</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">resid</span> <span class="op">~</span> <span class="va">row</span> <span class="op">*</span> <span class="va">block</span>,</span></span>
 <span class="r-in"><span>        <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"federer.tobacco"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -135,10 +121,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">height</span> <span class="op">~</span> <span class="va">rowf</span> <span class="op">+</span> <span class="va">blockf</span> <span class="op">+</span> <span class="va">dosef</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -147,14 +133,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/fisher.barley.html b/reference/fisher.barley.html
index 93e134d1..6c68d698 100644
--- a/reference/fisher.barley.html
+++ b/reference/fisher.barley.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of 5 barley varieties, 6 locations, 2 years</h1>
-      
+
       <div class="d-none name"><code>fisher.barley.Rd</code></div>
     </div>
 
@@ -77,25 +63,25 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year, 1931/1932</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Trials of 5 varieties of barley were conducted at 6 stations in
-  Minnesota during the years 1931-1932.</p>  
+  Minnesota during the years 1931-1932.</p>
 <p>This is a subset of Immer's barley data.  The yield values here are
   totals of 3 reps (Immer gave the average yield of 3 reps).</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
-  
+
+
 <p>Ronald Fisher (1935).
   <em>The Design of Experiments</em>.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>George Fernandez (1991).
   Analysis of Genotype x Environment Interaction by Stability Estimates.
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">fisher.barley</span><span class="op">)</span></span></span>
@@ -197,10 +183,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># gen_Velvet!R     14.08405  16.55558</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -209,14 +195,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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index 95c27580..c31c069d 100644
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+++ b/reference/fisher.latin.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Latin square experiment on mangolds</h1>
-      
+
       <div class="d-none name"><code>fisher.latin.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -120,7 +106,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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+++ b/reference/forster.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of wheat in Australia."><title>Uniformity trial of wheat in Australia. — forster.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of wheat in Australia. — forster.wheat.uniformity"><meta property="og:description" content="Uniformity trial of wheat in Australia."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat in Australia.</h1>
-      
+
       <div class="d-none name"><code>forster.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -74,26 +60,26 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, ounces per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>This experiment was a repeat of the classic experiment by Mercer and
-  Hall.</p>  
-<p>Conducted at State Research Farm, Werribee, Victoria, Australia.</p>  
+  Hall.</p>
+<p>Conducted at State Research Farm, Werribee, Victoria, Australia.</p>
 <p>Planted 1926. Harvested 1927. An acre of land was selected. Each plot
-  had one double-sown row.</p>  
-<p>Each plot was 30 x 20 links. The whole experiment was 300 x 320 links.</p>  
-<p>Near the west edge, a strip was damaged by cart tracks and excluded.</p>  
+  had one double-sown row.</p>
+<p>Each plot was 30 x 20 links. The whole experiment was 300 x 320 links.</p>
+<p>Near the west edge, a strip was damaged by cart tracks and excluded.</p>
 <p>The field was marked into quarters and one quarter was subdivided and
-  harvested at a time.</p>  
-<p>Each quarter was cut into 5 strips of 8 plots.</p>  
-<p>Field length: 16 plots * 20 links = 320 links (211 feet).</p>  
-<p>Field width: 10 plots * 30 links = 300 links (197 feet).</p>  
+  harvested at a time.</p>
+<p>Each quarter was cut into 5 strips of 8 plots.</p>
+<p>Field length: 16 plots * 20 links = 320 links (211 feet).</p>
+<p>Field width: 10 plots * 30 links = 300 links (197 feet).</p>
 <p>Note: It is not clear how a strip "a few yards wide" could be omitted
-  and yet the dimensions of the whole area still be 300 x 320 links.</p>  
+  and yet the dimensions of the whole area still be 300 x 320 links.</p>
 <p>Since the omitted strip is about 1/3 the width of a plot, we (agridat
-  authors) decided to ignore the omitted strip.</p>  
+  authors) decided to ignore the omitted strip.</p>
 <p>This electronic data was manually typed from the source on 2023-04-12.
   Summary statistics of this electronic data differ slightly from the
   summaries in Forster, indicating possible typos or rounding of the
@@ -104,7 +90,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Forster, H. C. (Howard Carlyle), - Vasey, A. J. (1928).
   Experimental error of field trials in Australia.
-  Proceedings of the Royal Society of Victoria. New series, 40, 70--80.
+  Proceedings of the Royal Society of Victoria. New series, 40, 70–80.
   Table 1.
   https://www.biodiversitylibrary.org/page/54367272</p>
     </div>
@@ -115,7 +101,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">forster.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">forster.wheat.uniformity</span></span></span>
@@ -135,13 +121,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/filter.html" class="external-link">filter</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">&gt;</span><span class="fl">156.5</span>, <span class="va">yield</span><span class="op">&lt;</span><span class="fl">161.5</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">16</span><span class="op">*</span><span class="fl">20</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">10</span><span class="op">*</span><span class="fl">30</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"forster.wheat.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/foulley.calving.html b/reference/foulley.calving.html
index c859a552..c9e649e0 100644
--- a/reference/foulley.calving.html
+++ b/reference/foulley.calving.html
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       <img src="../logo.png" class="logo" alt=""><h1>Calving difficulty by calf sex and age of dam</h1>
-      
+
       <div class="d-none name"><code>foulley.calving.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>count</code></dt>
 <dd><p>count of births for each category</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -90,7 +76,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   of dam.</p>
 <p>Note: The paper by Foulley and Gianola has '21943' as the count for
   score 1, F, &gt;8.  This data uses '20943' so that the marginal totals
-  from this data match the marginal totals given in the paper.</p>  
+  from this data match the marginal totals given in the paper.</p>
 <p>Used with permission of Jean-Louis Foulley.</p>
     </div>
     <div class="section level2">
@@ -98,13 +84,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>JL Foulley, D Gianola (1996).
   Statistical Analysis of Ordered Categorical Data via a Structured
   Heteroskedastic Threshold Model.
-  Genet Sel Evol, 28, 249--273.
+  Genet Sel Evol, 28, 249–273.
   https://doi.org/10.1051/gse:19960304</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">foulley.calving</span><span class="op">)</span></span></span>
@@ -165,10 +151,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -177,14 +163,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat, 22 varieties at 14 sites in Australia</h1>
-      
+
       <div class="d-none name"><code>fox.wheat.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>state</code></dt>
 <dd><p>state in Australia</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,7 +87,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -127,10 +113,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"fox.wheat"</span>, xlab<span class="op">=</span><span class="st">"Variety mean across all sites"</span>,</span></span>
 <span class="r-in"><span>       ylab<span class="op">=</span><span class="st">"Variety yield at each site within states"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/garber.multi.uniformity.html b/reference/garber.multi.uniformity.html
index b7db1965..247466ef 100644
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+++ b/reference/garber.multi.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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+  Agricultural Experiment Station, 1923-1924, on the same land."><meta property="og:description" content="Uniformity trials of oat hay and wheat grain, at West Virginia
+  Agricultural Experiment Station, 1923-1924, on the same land."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of oat hay and wheat grain</h1>
-      
+
       <div class="d-none name"><code>garber.multi.uniformity.Rd</code></div>
     </div>
 
@@ -82,38 +68,38 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (pounds or bu/ac)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The experiments were conducted at the West Virginia Agricultural
   Experiment Station at Maggie, West Virginia.</p>
 <p>Note, Garber et al (1926) and Garber et al (1931) describe uniformity
   trials from the same field, but the experimental plot numbers in the
-  two papers are different, indicating different parts of the field.</p>  
+  two papers are different, indicating different parts of the field.</p>
 <p>The data from 1923 and 1924 are given in Garber (1926).</p>
 <p>The data from 1927, 1928, 1929 are given in Garber (1931).</p>
 <p>All the data were given in the source papers as relative deviations
   from mean, but have been converted to absolute yields for this
   package.</p>
-<p>First paper: Garber (1926)</p>  
+<p>First paper: Garber (1926)</p>
 <p>Each plot was 68 feet x 21 feet. After discarding a 3.5 foot border on
   all sides, the harvested area was 61 feet x 14 feet. The plots were
   laid out in double series with a 14-foot roadway between the
   plots. For example, columns 1 &amp; 2 were side-by-side, then 14 foot
-  road, then columns 3 &amp; 4, then 14 foot road, then columns 5 &amp; 6.</p>  
+  road, then columns 3 &amp; 4, then 14 foot road, then columns 5 &amp; 6.</p>
 <p>Note: The orientation of the plots (68x21) is an educated guess.
   If the orientation was 21x68, the field would be extremely narrow and
-  long.</p>  
+  long.</p>
 <p>Field width: 6 plots * 68 feet + 14 ft/roadway * 2 = 436 feet</p>
-<p>Field length: 45 plots * 21 feet/plot = 945 feet</p>  
+<p>Field length: 45 plots * 21 feet/plot = 945 feet</p>
 <p>Garber said: "Plots 211 to 214, and 261 to 264, [note, these are rows
   11-14, columns 5-6] inclusive, were eliminated from this study because
   of the fact that a few years ago a straw stack had stood on or in the
   vicinity...which undoubtedly accounts for the relatively high yields
-  on plots 261 to 264, inclusive."</p>  
+  on plots 261 to 264, inclusive."</p>
 <p>1923 oat hay, yield in pounds per acre</p>
 <p>The data for the oat hay was given in Table 5 as mean-subtracted
   yields in pounds per acre for each plot. The oat
@@ -126,10 +112,10 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>The data for the wheat was given in bushels per acre, expressed as
   deviations from the mean yield (15.6 bu).
   We added the mean to all plot data.</p>
-<p>Second paper: Garber (1926)</p>  
+<p>Second paper: Garber (1926)</p>
 <p>1927 corn, 1928 oats, 1929 wheat</p>
-<p>The field is 10 plots wide, 84 plots tall.</p>  
-<p>Field width: 10 plots * 68 feet + 4 roads * 14 feet = 736 feet.</p>  
+<p>The field is 10 plots wide, 84 plots tall.</p>
+<p>Field width: 10 plots * 68 feet + 4 roads * 14 feet = 736 feet.</p>
 <p>Field length: 84 plots * 21 feet + 3 roads * 14 feet = 1806 feet.</p>
     </div>
     <div class="section level2">
@@ -150,7 +136,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -166,13 +152,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 5 1929   19.44650</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1923</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1923</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">945</span><span class="op">/</span><span class="fl">436</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"garber.multi.uniformity 1923 oats"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1924</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1924</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">945</span><span class="op">/</span><span class="fl">436</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"garber.multi.uniformity 1924 wheat"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>, subset<span class="op">=</span><span class="va">year</span> <span class="op">&gt;=</span> <span class="fl">1927</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>, subset<span class="op">=</span><span class="va">year</span> <span class="op">&gt;=</span> <span class="fl">1927</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1806</span><span class="op">/</span><span class="fl">736</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"garber.multi.uniformity 1927-1929"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -185,10 +171,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># cor(subset(dat, year==1927)$yield,</span></span></span>
 <span class="r-in"><span>  <span class="co">#     subset(dat, year==1929)$yield, use="pair" ) # .19</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -197,14 +183,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gartner.corn.html b/reference/gartner.corn.html
index ddd00084..9ee078d5 100644
--- a/reference/gartner.corn.html
+++ b/reference/gartner.corn.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield monitor data from a corn field in Minnesota"><title>Yield monitor data from a corn field in Minnesota — gartner.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yield monitor data from a corn field in Minnesota — gartner.corn"><meta property="og:description" content="Yield monitor data from a corn field in Minnesota"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Yield monitor data from a corn field in Minnesota — gartner.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yield monitor data from a corn field in Minnesota — gartner.corn"><meta name="description" content="Yield monitor data from a corn field in Minnesota"><meta property="og:description" content="Yield monitor data from a corn field in Minnesota"><meta property="og:image" content="/logo.png"></head><body>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Yield monitor data from a corn field in Minnesota</h1>
-      
+
       <div class="d-none name"><code>gartner.corn.Rd</code></div>
     </div>
 
@@ -89,28 +75,28 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>elev</code></dt>
 <dd><p>elevation, feet</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The data was collected 5 Nov 2011 from a corn field south of Mankato,
   Minnesota, using a combine-mounted yield monitor.
-  https://www.google.com/maps/place/43.9237575,-93.9750632</p>  
-<p>Each harvested swath was 12 rows wide = 360 inches.</p>  
+  https://www.google.com/maps/place/43.9237575,-93.9750632</p>
+<p>Each harvested swath was 12 rows wide = 360 inches.</p>
 <p>Timestamp 0 = 5 Nov 2011, 12:38:03 Central Time.
   Timestamp 16359 = 4.54 hours later.</p>
 <p>Yield is calculated as total dry weight (corrected to 15.5 percent
   moisture), divided by 56 pounds (to get bushels), divided by the
-  harvested area:</p>  
+  harvested area:</p>
 <p>drygrain = [massflow * seconds * (100-moisture) / (100-15.5)] / 56
   harvested area = (distance * swath width) / 6272640
   yield = drygrain / area</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
+
 
 <p>University of Minnesota Precision Agriculture Center.
   Retrieved 27 Aug 2015 from https://web.archive.org/web/20100717003256/https://www.soils.umn.edu/academics/classes/soil4111/files/yield_a.xls</p>
@@ -128,7 +114,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gartner.corn</span><span class="op">)</span></span></span>
@@ -204,10 +190,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu">close3d</span><span class="op">(</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -216,14 +202,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gathmann.bt.html b/reference/gathmann.bt.html
index 53307760..8d7f32ca 100644
--- a/reference/gathmann.bt.html
+++ b/reference/gathmann.bt.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Impact of Bt corn on non-target species</h1>
-      
+
       <div class="d-none name"><code>gathmann.bt.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>aranei</code></dt>
 <dd><p>aranei abundance</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -78,7 +64,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   control variety.</p>
 <p>Species abundances were measured for <em>Thysanoptera</em> (thrips) and
   <em>Araneida</em> (spiders) in 8 different plots.</p>
-<p>Each response is probably a mean across repeated measurements.</p>  
+<p>Each response is probably a mean across repeated measurements.</p>
 <p>Used with permission of Achim Gathmann.</p>
     </div>
     <div class="section level2">
@@ -90,7 +76,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gathmann.bt</span><span class="op">)</span></span></span>
@@ -149,10 +135,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -161,14 +147,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/gauch.soy.html b/reference/gauch.soy.html
index 5b5f55b7..d7f83be7 100644
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+++ b/reference/gauch.soy.html
@@ -1,58 +1,44 @@
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-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="New York soybean yields, 1977 to 1988, for 7 genotypes, 55
-  environments (9 loc, 12 years), 2-3 reps."><title>Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy"><meta property="og:description" content="New York soybean yields, 1977 to 1988, for 7 genotypes, 55
-  environments (9 loc, 12 years), 2-3 reps."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  environments (9 loc, 12 years), 2-3 reps."><meta property="og:description" content="New York soybean yields, 1977 to 1988, for 7 genotypes, 55
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of soybeans in New York, 1977 to 1988</h1>
-      
+
       <div class="d-none name"><code>gauch.soy.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>loc</code></dt>
 <dd><p>location, 10 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -121,7 +107,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gauch.soy</span><span class="op">)</span></span></span>
@@ -145,10 +131,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/with.html" class="external-link">with</a></span><span class="op">(</span><span class="va">bip</span>, <span class="fu"><a href="https://rdrr.io/r/graphics/text.html" class="external-link">text</a></span><span class="op">(</span><span class="va">yield</span>, <span class="va">PC1</span>, <span class="fu"><a href="https://rdrr.io/r/base/colnames.html" class="external-link">rownames</a></span><span class="op">(</span><span class="va">bip</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                 col<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/ifelse.html" class="external-link">ifelse</a></span><span class="op">(</span><span class="va">bip</span><span class="op">$</span><span class="va">type</span><span class="op">==</span><span class="st">"GEN"</span>, <span class="st">"darkgreen"</span>, <span class="st">"blue"</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                 cex<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/ifelse.html" class="external-link">ifelse</a></span><span class="op">(</span><span class="va">bip</span><span class="op">$</span><span class="va">type</span><span class="op">==</span><span class="st">"GEN"</span>, <span class="fl">1.5</span>, <span class="fl">.75</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -157,14 +143,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/george.wheat.html b/reference/george.wheat.html
index 3426fab6..5105beee 100644
--- a/reference/george.wheat.html
+++ b/reference/george.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-location/year breeding trial in California"><title>Multi-location/year breeding trial in California — george.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-location/year breeding trial in California — george.wheat"><meta property="og:description" content="Multi-location/year breeding trial in California"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-location/year breeding trial in California — george.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-location/year breeding trial in California — george.wheat"><meta name="description" content="Multi-location/year breeding trial in California"><meta property="og:description" content="Multi-location/year breeding trial in California"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-location/year breeding trial in California</h1>
-      
+
       <div class="d-none name"><code>george.wheat.Rd</code></div>
     </div>
 
@@ -80,23 +66,23 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>This is a nice example of data from a breeding trial, in which some
   check genotypes are kepts during the whole experiment, while other
   genotypes enter and leave the breeding program.  The data is highly
-  unbalanced with respect to genotypes-by-environments.</p>  
+  unbalanced with respect to genotypes-by-environments.</p>
 <p>Results of late-stage small-trials of 211 genotypes of wheat in
-  California, conducted at 9 locations during the years 2004-2018.</p>  
+  California, conducted at 9 locations during the years 2004-2018.</p>
 <p>Each trial was an RCB with 4 blocks.</p>
 <p>The authors used this data to look at GGE biplots across years and
   concluded that repeatable genotype-by-location patterns were weak, and
   therefore the California cereal production region is a large,
   unstable, mega-environment.</p>
 <p>Data downloaded 2019-10-29 from Dryad,
-  https://doi.org/10.5061/dryad.bf8rt6b. 
+  https://doi.org/10.5061/dryad.bf8rt6b.
   Data are public domain.</p>
     </div>
     <div class="section level2">
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span>, <span class="va">reshape2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">george.wheat</span><span class="op">)</span></span></span>
@@ -126,10 +112,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                     main<span class="op">=</span><span class="st">"george.wheat"</span>, xlab<span class="op">=</span><span class="st">"genotype"</span>, ylab<span class="op">=</span><span class="st">"environment"</span>,</span></span>
 <span class="r-in"><span>                     scales<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>x<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>cex<span class="op">=</span><span class="fl">.3</span>,rot<span class="op">=</span><span class="fl">90</span><span class="op">)</span>,y<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>cex<span class="op">=</span><span class="fl">.5</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -138,14 +124,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/giles.wheat.html b/reference/giles.wheat.html
index 7a4c4c04..878d5c9c 100644
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+++ b/reference/giles.wheat.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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-  unbalanced with respect to experiment year and genotype."><title>Straw length and ear emergence for wheat genotypes. — giles.wheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Straw length and ear emergence for wheat genotypes. — giles.wheat"><meta property="og:description" content="Straw length and ear emergence for wheat genotypes.  Data are
-  unbalanced with respect to experiment year and genotype."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  unbalanced with respect to experiment year and genotype."><meta property="og:description" content="Straw length and ear emergence for wheat genotypes.  Data are
+  unbalanced with respect to experiment year and genotype."><meta property="og:image" content="/logo.png"></head><body>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Straw length and ear emergence for wheat genotypes.</h1>
-      
+
       <div class="d-none name"><code>giles.wheat.Rd</code></div>
     </div>
 
@@ -80,12 +66,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>emergence</code></dt>
 <dd><p>ear emergence, Julian date</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Highly unbalanced data of straw length and ear emergence date for
   wheat genotypes.</p>
 <p>The 'genotype' column is called 'Accession number' in original data.
@@ -105,8 +91,8 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
-  
+
+
 <p>Piepho, HP (2003).
   Model-based mean adjustment in quantitative germplasm evaluation data.
   <em>Genetic Resources and Crop Evolution</em>, 50, 281-290.
@@ -115,7 +101,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">giles.wheat</span><span class="op">)</span></span></span>
@@ -162,10 +148,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu">emmeans</span><span class="op">(</span><span class="va">m4</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'gen'</span>,<span class="st">'env'</span><span class="op">)</span><span class="op">)</span> <span class="co"># Matches Piepho Table 9. rpws (c)</span></span></span>
 <span class="r-in"><span><span class="fu">emmeans</span><span class="op">(</span><span class="va">m4</span>, <span class="st">'gen'</span><span class="op">)</span> <span class="co"># Match Piepho table 10, Least Squares column</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -174,14 +160,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/gilmour.serpentine.html b/reference/gilmour.serpentine.html
index f2e9e649..16e1b1d7 100644
--- a/reference/gilmour.serpentine.html
+++ b/reference/gilmour.serpentine.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="An RCB experiment of wheat in South Australia, with strong spatial
-  variation and serpentine row/column effects."><title>Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine"><meta property="og:description" content="An RCB experiment of wheat in South Australia, with strong spatial
-  variation and serpentine row/column effects."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine"><meta name="description" content="An RCB experiment of wheat in South Australia, with strong spatial
+  variation and serpentine row/column effects."><meta property="og:description" content="An RCB experiment of wheat in South Australia, with strong spatial
+  variation and serpentine row/column effects."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Wheat yield in South Australia with serpentine row/col effects</h1>
-      
+
       <div class="d-none name"><code>gilmour.serpentine.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -90,7 +76,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   down columns.  The trial was sown in a serpentine manner with a
   planter that seeds three rows at a time (Left, Middle, Right).</p>
 <p>Field width 15 columns * 6 m = 90 m</p>
-<p>Field length 22 plots * .75 m = 16.5 m</p>  
+<p>Field length 22 plots * .75 m = 16.5 m</p>
 <p>Used with permission of Arthur Gilmour, in turn with permission from
   Gil Hollamby.</p>
     </div>
@@ -111,14 +97,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gilmour.serpentine</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">gilmour.serpentine</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="va">gen</span>, show.key<span class="op">=</span><span class="cn">FALSE</span>, out1<span class="op">=</span><span class="va">rep</span>,</span></span>
 <span class="r-in"><span>          aspect <span class="op">=</span> <span class="fl">16.5</span><span class="op">/</span><span class="fl">90</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"gilmour.serpentine"</span><span class="op">)</span></span></span>
@@ -176,10 +162,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"gilmour.serpentine"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -188,14 +174,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/gilmour.slatehall.html b/reference/gilmour.slatehall.html
index 5d380d48..86f2d70d 100644
--- a/reference/gilmour.slatehall.html
+++ b/reference/gilmour.slatehall.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yields for a trial at Slate Hall Farm in 1978."><title>Slate Hall Farm 1978 — gilmour.slatehall • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Slate Hall Farm 1978 — gilmour.slatehall"><meta property="og:description" content="Yields for a trial at Slate Hall Farm in 1978."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Slate Hall Farm 1978 — gilmour.slatehall • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Slate Hall Farm 1978 — gilmour.slatehall"><meta name="description" content="Yields for a trial at Slate Hall Farm in 1978."><meta property="og:description" content="Yields for a trial at Slate Hall Farm in 1978."><meta property="og:image" content="/logo.png"></head><body>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Slate Hall Farm 1978</h1>
-      
+
       <div class="d-none name"><code>gilmour.slatehall.Rd</code></div>
     </div>
 
@@ -76,17 +62,17 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>rep</code></dt>
 <dd><p>rep factor, 6 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>The trial was of spring wheat at Slate Hall Farm in 1978.  The
   experiment was a balanced lattice with 25 varieties in 6 replicates.
   The 'rep' labels are arbitrary (no rep labels appeared in the source
-  data).  
+  data).
   Each row within a rep is an incomplete block.
-  The plot size was 1.5 meters by 4 meters.</p>  
-<p>Field width: 10 plots x 4 m = 40 m</p>  
+  The plot size was 1.5 meters by 4 meters.</p>
+<p>Field width: 10 plots x 4 m = 40 m</p>
 <p>Field length: 15 plots x 1.5 meters = 22.5 m</p>
     </div>
     <div class="section level2">
@@ -105,14 +91,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gilmour.slatehall</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">gilmour.slatehall</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span> <span class="op">*</span> <span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span> <span class="op">*</span> <span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">22.5</span><span class="op">/</span><span class="fl">40</span>, num<span class="op">=</span><span class="va">gen</span>, out1<span class="op">=</span><span class="va">rep</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"gilmour.slatehall"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -130,7 +116,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># coef(m4)$fixed[1] # linear row</span></span></span>
 <span class="r-in"><span>    <span class="co"># [1] 31.72252 # (sign switch due to row ordering)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m4</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m4</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##       effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##     dev(col)  2519      1959         1.3     P   0</span></span></span>
 <span class="r-in"><span>    <span class="co">##     dev(row) 20290     10260         2       P   0</span></span></span>
@@ -141,10 +127,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="fu">varioGram</span><span class="op">(</span><span class="va">m4</span><span class="op">)</span>, main<span class="op">=</span><span class="st">"gilmour.slatehall"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -153,14 +139,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gomez.fractionalfactorial.html b/reference/gomez.fractionalfactorial.html
index 00d1284b..a3a281e7 100644
--- a/reference/gomez.fractionalfactorial.html
+++ b/reference/gomez.fractionalfactorial.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2.
-  Two reps with 2 blocks in each rep."><title>Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial"><meta property="og:description" content="Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2.
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+  Two reps with 2 blocks in each rep."><meta property="og:description" content="Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2.
+  Two reps with 2 blocks in each rep."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2</h1>
-      
+
       <div class="d-none name"><code>gomez.fractionalfactorial.Rd</code></div>
     </div>
 
@@ -100,12 +86,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>f</code></dt>
 <dd><p>f treatment, 2 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Grain yield from a 2^6 fractional factorial experiment in blocks of 16
-  plots each, with two replications.</p>  
+  plots each, with two replications.</p>
 <p>Gomez has some inconsistencies. One example:</p>
 <p>Page 171: treatment (1) in rep 1, block 2 and rep 2, block 1.</p>
 <p>Page 172: treatment (1) in Rep 1, block 1 and rep 2, block 1.</p>
@@ -122,7 +108,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.fractionalfactorial</span><span class="op">)</span></span></span>
@@ -131,7 +117,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># trt abcdef has the highest yield</span></span></span>
 <span class="r-in"><span><span class="co"># Gomez, Figure 4.8</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">trt</span>, shorten<span class="op">=</span><span class="st">"none"</span>, show.key<span class="op">=</span><span class="cn">FALSE</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.fractionalfactorial - treatment &amp; yield"</span><span class="op">)</span></span></span>
@@ -156,10 +142,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu">MEPlot</span><span class="op">(</span><span class="va">m1</span>, select<span class="op">=</span><span class="fl">3</span><span class="op">:</span><span class="fl">8</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"gomez.fractionalfactorial - main effects plot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Group balanced split-plot design in rice</h1>
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+
       <div class="d-none name"><code>gomez.groupsplit.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield of rice</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -107,7 +93,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Gomez figure 3.10.  Obvious fert and group effects</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">group</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">group</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">rep</span>, col<span class="op">=</span><span class="va">fert</span>, text<span class="op">=</span><span class="va">gen</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.groupsplit"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="gomez.groupsplit-1.png" alt="" width="700" height="433"></span>
@@ -145,7 +131,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-out co"><span class="r-pr">#&gt;</span> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1</span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -154,14 +140,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of rice, heterogeneity of regressions</h1>
-      
+
       <div class="d-none name"><code>gomez.heterogeneity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>tillers</code></dt>
 <dd><p>tillers no/hill</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>An experiment with 3 genotypes to examine the relationship of yield to
   number of tillers.</p>
 <p>Used with permission of Kwanchai Gomez.</p>
@@ -98,7 +84,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.heterogeneity</span><span class="op">)</span></span></span>
@@ -108,10 +94,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">tillers</span>, <span class="va">dat</span>, groups<span class="op">=</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>         type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"p"</span>,<span class="st">"r"</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"gomez.heterogeneity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gomez.heteroskedastic.html b/reference/gomez.heteroskedastic.html
index 4d340ce2..234b2c43 100644
--- a/reference/gomez.heteroskedastic.html
+++ b/reference/gomez.heteroskedastic.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of rice, heteroskedastic varieties</h1>
-      
+
       <div class="d-none name"><code>gomez.heteroskedastic.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>RCB design with three reps.  Genotypes 1-15 are hybrids, 16-32 are
   parents, 33-35 are checks.</p>
@@ -134,7 +120,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -143,14 +129,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/gomez.multilocsplitplot.html b/reference/gomez.multilocsplitplot.html
index b805a6b3..8a2c46c1 100644
--- a/reference/gomez.multilocsplitplot.html
+++ b/reference/gomez.multilocsplitplot.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Grain yield was measured at 3 locations with 2 reps per location.
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot"><meta name="description" content="Grain yield was measured at 3 locations with 2 reps per location.
   Within each rep, the main plot was 6 nitrogen fertilizer treatments
-  and the sub plot was 2 rice varieties."><title>Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot"><meta property="og:description" content="Grain yield was measured at 3 locations with 2 reps per location.
+  and the sub plot was 2 rice varieties."><meta property="og:description" content="Grain yield was measured at 3 locations with 2 reps per location.
   Within each rep, the main plot was 6 nitrogen fertilizer treatments
-  and the sub plot was 2 rice varieties."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of rice, split-plot design</h1>
-      
+
       <div class="d-none name"><code>gomez.multilocsplitplot.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl><p>Used with permission of Kwanchai Gomez.</p>
     </div>
     <div class="section level2">
@@ -95,7 +81,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.multilocsplitplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">gomez.multilocsplitplot</span></span></span>
@@ -128,10 +114,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## nf:gen      5  1501767   300353  0.7768</span></span></span>
 <span class="r-in"><span>  <span class="co">## loc:nf:gen 10  1502273   150227  0.3885</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -140,14 +126,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/gomez.nitrogen.html b/reference/gomez.nitrogen.html
index d954c910..b1a8aa4a 100644
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+++ b/reference/gomez.nitrogen.html
@@ -1,56 +1,42 @@
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Soil nitrogen at three times for eight fertilizer treatments</h1>
-      
+
       <div class="d-none name"><code>gomez.nitrogen.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>stage</code></dt>
 <dd><p>growth stage, three periods</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -229,7 +215,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -238,14 +224,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/gomez.nonnormal1.html b/reference/gomez.nonnormal1.html
index 2be220e6..cdcb8411 100644
--- a/reference/gomez.nonnormal1.html
+++ b/reference/gomez.nonnormal1.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Insecticide treatment effectiveness"><title>Insecticide treatment effectiveness — gomez.nonnormal1 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Insecticide treatment effectiveness — gomez.nonnormal1"><meta property="og:description" content="Insecticide treatment effectiveness"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Insecticide treatment effectiveness</h1>
-      
+
       <div class="d-none name"><code>gomez.nonnormal1.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>larvae</code></dt>
 <dd><p>number of larvae</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Nine treatments (including the control, T9) were used on four
   replicates.  The number of living insect larvae were recorded.</p>
@@ -146,7 +132,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -155,14 +141,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/gomez.nonnormal2.html b/reference/gomez.nonnormal2.html
index 56297736..4a62c077 100644
--- a/reference/gomez.nonnormal2.html
+++ b/reference/gomez.nonnormal2.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="RCB experiment of rice, measuring white heads"><title>RCB experiment of rice, measuring white heads — gomez.nonnormal2 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of rice, measuring white heads — gomez.nonnormal2"><meta property="og:description" content="RCB experiment of rice, measuring white heads"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <div class="d-none name"><code>gomez.nonnormal2.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>white</code></dt>
 <dd><p>percentage of white heads</p></dd>
 
-  
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 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -134,7 +120,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
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       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of rice, 12 varieties with leafhopper survival</h1>
-      
+
       <div class="d-none name"><code>gomez.nonnormal3.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>hoppers</code></dt>
 <dd><p>percentage of surviving leafhoppers</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -139,7 +125,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of rice</h1>
-      
+
       <div class="d-none name"><code>gomez.rice.uniformity.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield, grams/m^2</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -79,8 +65,12 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   Each square meter (1 meter by 1 meter) was harvested and weighed.</p>
 <p>Field width: 18 plots x 1 m = 18 m</p>
 <p>Field length: 38 plots x 1 m = 38 m</p>
-<p>Note that Gomez published a paper in 1969 on rice uniformity data.
-  Quite likely this is the same data. Estimated harvest year is 1968.</p>  
+<p>Note that Gomez published a paper in 1969 on rice uniformity data from
+  four trials conducted in the 1968 dry and wet seasons. It is likely
+  that this data is taken from one of those four trials. Estimated
+  harvest year is 1968.
+  "Estimation of optimum plot size from rice uniformity data".
+  https://www.cabidigitallibrary.org/doi/full/10.5555/19711601105</p>
 <p>Used with permission of Kwanchai Gomez.</p>
     </div>
     <div class="section level2">
@@ -92,7 +82,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.rice.uniformity</span><span class="op">)</span></span></span>
@@ -100,7 +90,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># Raw data plot</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">38</span><span class="op">/</span><span class="fl">18</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.rice.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -115,7 +105,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>            <span class="va">m0</span><span class="op">[</span><span class="va">rx</span>,<span class="va">cx</span><span class="op">+</span><span class="fl">1</span><span class="op">]</span><span class="op">+</span><span class="va">m0</span><span class="op">[</span><span class="va">rx</span>,<span class="va">cx</span><span class="op">]</span><span class="op">+</span><span class="va">m0</span><span class="op">[</span><span class="va">rx</span>,<span class="va">cx</span><span class="op">-</span><span class="fl">1</span><span class="op">]</span><span class="op">+</span></span></span>
 <span class="r-in"><span>            <span class="va">m0</span><span class="op">[</span><span class="va">rx</span><span class="op">-</span><span class="fl">1</span>,<span class="va">cx</span><span class="op">+</span><span class="fl">1</span><span class="op">]</span><span class="op">+</span><span class="va">m0</span><span class="op">[</span><span class="va">rx</span><span class="op">-</span><span class="fl">1</span>,<span class="va">cx</span><span class="op">]</span><span class="op">+</span><span class="va">m0</span><span class="op">[</span><span class="va">rx</span><span class="op">-</span><span class="fl">1</span>,<span class="va">cx</span><span class="op">-</span><span class="fl">1</span><span class="op">]</span><span class="op">)</span><span class="op">/</span><span class="fl">9</span></span></span>
 <span class="r-in"><span><span class="va">dat3</span> <span class="op">&lt;-</span> <span class="fu">melt</span><span class="op">(</span><span class="va">dmat3</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat3</span>, <span class="va">value</span><span class="op">~</span><span class="va">Var2</span><span class="op">*</span><span class="va">Var1</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat3</span>, <span class="va">value</span><span class="op">~</span><span class="va">Var2</span><span class="op">*</span><span class="va">Var1</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">38</span><span class="op">/</span><span class="fl">18</span>,</span></span>
 <span class="r-in"><span>        at<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">576</span>,<span class="fl">637</span>,<span class="fl">695</span>,<span class="fl">753</span>,<span class="fl">811</span>,<span class="fl">870</span>,<span class="fl">927</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.rice.uniformity smoothed"</span><span class="op">)</span></span></span>
@@ -137,10 +127,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## mtext("CV", 4, line=2)</span></span></span>
 <span class="r-in"><span><span class="co">## par(op)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +139,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/gomez.seedrate.html b/reference/gomez.seedrate.html
index 0a8aab92..0b88a4e9 100644
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+++ b/reference/gomez.seedrate.html
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       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of rice, 6 densities</h1>
-      
+
       <div class="d-none name"><code>gomez.seedrate.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -115,7 +101,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/gomez.splitplot.subsample.html b/reference/gomez.splitplot.subsample.html
index 68f1df9a..48c68443 100644
--- a/reference/gomez.splitplot.subsample.html
+++ b/reference/gomez.splitplot.subsample.html
@@ -1,56 +1,42 @@
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-plot experiment of rice, with subsamples</h1>
-      
+
       <div class="d-none name"><code>gomez.splitplot.subsample.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>plant height (cm)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,7 +81,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.splitplot.subsample</span><span class="op">)</span></span></span>
@@ -137,10 +123,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##           Df Sum Sq Mean Sq F value Pr(&gt;F)</span></span></span>
 <span class="r-in"><span><span class="co">## Residuals 96  167.4   1.744</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +135,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gomez.splitsplit.html b/reference/gomez.splitsplit.html
index 4be10404..cb99ffaf 100644
--- a/reference/gomez.splitsplit.html
+++ b/reference/gomez.splitsplit.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Grain yield of three varieties of rice grown in a split-split plot
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Split-split-plot experiment of rice — gomez.splitsplit • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-split-plot experiment of rice — gomez.splitsplit"><meta name="description" content="Grain yield of three varieties of rice grown in a split-split plot
   arrangement with 3 reps, nitrogen level as the main plot, management
-  practice as the sub-plot, and rice variety as the sub-sub plot."><title>Split-split-plot experiment of rice — gomez.splitsplit • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-split-plot experiment of rice — gomez.splitsplit"><meta property="og:description" content="Grain yield of three varieties of rice grown in a split-split plot
+  practice as the sub-plot, and rice variety as the sub-sub plot."><meta property="og:description" content="Grain yield of three varieties of rice grown in a split-split plot
   arrangement with 3 reps, nitrogen level as the main plot, management
-  practice as the sub-plot, and rice variety as the sub-sub plot."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+  practice as the sub-plot, and rice variety as the sub-sub plot."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-split-plot experiment of rice</h1>
-      
+
       <div class="d-none name"><code>gomez.splitsplit.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>row</code></dt>
 <dd><p>row position in the field</p></dd>
 
-  
+
 </dl><p>Used with permission of Kwanchai Gomez.</p>
     </div>
     <div class="section level2">
@@ -109,7 +95,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -118,11 +104,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat</span><span class="op">$</span><span class="va">nf</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">nitro</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">nf</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">nf</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">rep</span>, col<span class="op">=</span><span class="va">management</span>, num<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.splitsplit"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">rep</span>, main<span class="op">=</span><span class="st">"gomez.splitsplit"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -142,10 +128,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m0</span><span class="op">)</span> <span class="co"># Similar to Gomez, p. 153.</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -154,14 +140,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gomez.stripplot.html b/reference/gomez.stripplot.html
index c88cca58..8465cf0d 100644
--- a/reference/gomez.stripplot.html
+++ b/reference/gomez.stripplot.html
@@ -1,58 +1,44 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Strip-plot experiment of rice</h1>
-      
+
       <div class="d-none name"><code>gomez.stripplot.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>row</code></dt>
 <dd><p>row</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -112,7 +98,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Gomez figure 3.7</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">rep</span>, out2<span class="op">=</span><span class="va">nitro</span>, num<span class="op">=</span><span class="va">nitro</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.stripplot"</span><span class="op">)</span></span></span>
@@ -210,7 +196,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -219,14 +205,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/gomez.stripsplitplot.html b/reference/gomez.stripsplitplot.html
index 01358e7a..6f3716cc 100644
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+++ b/reference/gomez.stripsplitplot.html
@@ -1,60 +1,46 @@
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-  as the subplot factor."><title>Strip-split-plot experiment of rice — gomez.stripsplitplot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Strip-split-plot experiment of rice — gomez.stripsplitplot"><meta property="og:description" content="A strip-split-plot experiment with three reps, genotype as the horizontal
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Strip-split-plot experiment of rice</h1>
-      
+
       <div class="d-none name"><code>gomez.stripsplitplot.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>row</code></dt>
 <dd><p>row</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,7 +91,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.stripsplitplot</span><span class="op">)</span></span></span>
@@ -113,7 +99,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Layout</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">rep</span>, col<span class="op">=</span><span class="va">nitro</span>, text<span class="op">=</span><span class="va">planting</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gomez.stripsplitplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -132,10 +118,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>               x.between<span class="op">=</span><span class="fl">0</span>, y.between<span class="op">=</span><span class="fl">0</span>,</span></span>
 <span class="r-in"><span>               x.relation<span class="op">=</span><span class="st">"free"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -144,14 +130,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/gomez.wetdry.html b/reference/gomez.wetdry.html
index 83c1337a..65bea966 100644
--- a/reference/gomez.wetdry.html
+++ b/reference/gomez.wetdry.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Rice yield in wet &amp;amp; dry seasons with nitrogen fertilizer treatments"><title>Rice yield in wet &amp; dry seasons with nitrogen fertilizer treatments — gomez.wetdry • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Rice yield in wet &amp; dry seasons with nitrogen fertilizer treatments — gomez.wetdry"><meta property="og:description" content="Rice yield in wet &amp;amp; dry seasons with nitrogen fertilizer treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Rice yield in wet &amp; dry seasons with nitrogen fertilizer treatments — gomez.wetdry • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Rice yield in wet &amp; dry seasons with nitrogen fertilizer treatments — gomez.wetdry"><meta name="description" content="Rice yield in wet &amp;amp; dry seasons with nitrogen fertilizer treatments"><meta property="og:description" content="Rice yield in wet &amp;amp; dry seasons with nitrogen fertilizer treatments"><meta property="og:image" content="/logo.png"></head><body>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Rice yield in wet &amp; dry seasons with nitrogen fertilizer treatments</h1>
-      
+
       <div class="d-none name"><code>gomez.wetdry.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield, t/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gomez.wetdry</span><span class="op">)</span></span></span>
@@ -130,10 +116,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## m2  5 86.418 93.424 -38.209   76.418                             </span></span></span>
 <span class="r-in"><span><span class="co">## m1  8 64.216 75.425 -24.108   48.216 28.202      3  3.295e-06 ***</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -142,14 +128,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/gotway.hessianfly.html b/reference/gotway.hessianfly.html
index 795e9107..cff4742d 100644
--- a/reference/gotway.hessianfly.html
+++ b/reference/gotway.hessianfly.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Hessian fly damage to wheat varieties</h1>
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+
       <div class="d-none name"><code>gotway.hessianfly.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>n</code></dt>
 <dd><p>number of total plants</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gotway.hessianfly</span><span class="op">)</span></span></span>
@@ -110,7 +96,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">prop</span> <span class="op">&lt;-</span> <span class="va">dat</span><span class="op">$</span><span class="va">y</span> <span class="op">/</span> <span class="va">dat</span><span class="op">$</span><span class="va">n</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">prop</span><span class="op">~</span><span class="va">long</span><span class="op">*</span><span class="va">lat</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">prop</span><span class="op">~</span><span class="va">long</span><span class="op">*</span><span class="va">lat</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, num<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">.75</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"gotway.hessianfly"</span><span class="op">)</span></span></span>
@@ -138,10 +124,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    control<span class="op">=</span><span class="fu">glmerControl</span><span class="op">(</span>check.nlev.gtr.1<span class="op">=</span><span class="st">"ignore"</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/coef.html" class="external-link">coef</a></span><span class="op">(</span><span class="va">l2</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/goulden.barley.uniformity.html b/reference/goulden.barley.uniformity.html
index eee43d6b..787f0157 100644
--- a/reference/goulden.barley.uniformity.html
+++ b/reference/goulden.barley.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of barley</h1>
-      
+
       <div class="d-none name"><code>goulden.barley.uniformity.Rd</code></div>
     </div>
 
@@ -70,19 +56,19 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Yield (in grams) of 2304 square-yard plots of barley grown in a field
   48 yards on each side at Dominion Rust Research Laboratory (Manitoba,
   Canada) in 1931. The field was sown at half density in one direction,
-  then half-density in a perpendicular direction.</p>  
+  then half-density in a perpendicular direction.</p>
 <p>In a letter from Goulden to Cochran, Goulden said: I had intended to
   use these yields for a study of the effect of systematic arrangements
   and also to measure the bias of semi-Latin squares...The correlation
   between adjacent pairs of plots is not high (0.5) and it was difficult
-  to demonstrate the bias in a satisfactory manner.</p>  
+  to demonstrate the bias in a satisfactory manner.</p>
 <p>Note: The data in Goulden (1939) are a subset of 20 rows and columns
   from one corner of the field in this full dataset.</p>
 <p>Field width: 48 plots x 3 feet = 144 feet</p>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>C. H. Goulden, (1939).
-  Methods of statistical analysis, 1st ed. Page 18.  
+  Methods of statistical analysis, 1st ed. Page 18.
   https://archive.org/stream/methodsofstatist031744mbp
   Note: This version is 20 plots x 20 plots.</p>
 <p>Leonard, Warren and Andrew Clark (1939).
@@ -108,14 +94,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">goulden.barley.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">goulden.barley.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">48</span><span class="op">/</span><span class="fl">48</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"goulden.barley.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -123,10 +109,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/hist.html" class="external-link">hist</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span>, main<span class="op">=</span><span class="st">"goulden.barley.uniformity"</span>,</span></span>
 <span class="r-in"><span>     breaks<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">21</span>,<span class="fl">40</span>,<span class="fl">59</span>,<span class="fl">78</span>,<span class="fl">97</span>,<span class="fl">116</span>,<span class="fl">135</span>,<span class="fl">154</span>,<span class="fl">173</span>,<span class="fl">192</span>,<span class="fl">211</span>,<span class="fl">230</span>,<span class="fl">249</span>,<span class="fl">268</span>,<span class="fl">287</span><span class="op">)</span><span class="op">+</span><span class="fl">.5</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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 </div>
 
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index c854db23..98d09537 100644
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+++ b/reference/goulden.eggs.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Sample of egg weights on 24 consecutive days</h1>
-      
+
       <div class="d-none name"><code>goulden.eggs.Rd</code></div>
     </div>
 
@@ -71,11 +57,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Data are the weights of 10 eggs taken at random on each day for 24
   days.  Day 1 was Dec 10, and Day 24 was Jan 2.</p>
@@ -95,7 +81,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">goulden.eggs</span><span class="op">)</span></span></span>
@@ -112,10 +98,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    xlab <span class="op">=</span> <span class="st">'Date'</span>, ylab <span class="op">=</span> <span class="st">'Std dev egg weight'</span> <span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/par.html" class="external-link">par</a></span><span class="op">(</span><span class="va">op</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/goulden.latin.html b/reference/goulden.latin.html
index 713d6dc1..49c228af 100644
--- a/reference/goulden.latin.html
+++ b/reference/goulden.latin.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Latin square experiment for testing fungicide"><title>Latin square experiment for testing fungicide — goulden.latin • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Latin square experiment for testing fungicide — goulden.latin"><meta property="og:description" content="Latin square experiment for testing fungicide"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Latin square experiment for testing fungicide — goulden.latin • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Latin square experiment for testing fungicide — goulden.latin"><meta name="description" content="Latin square experiment for testing fungicide"><meta property="og:description" content="Latin square experiment for testing fungicide"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Latin square experiment for testing fungicide</h1>
-      
+
       <div class="d-none name"><code>goulden.latin.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Five treatments were tested to control stem rust in wheat.  Treatment
   codes and descriptions:
@@ -99,7 +85,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
@@ -108,7 +94,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"goulden.latin"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -117,10 +103,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span> <span class="va">trt</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/goulden.splitsplit.html b/reference/goulden.splitsplit.html
index 8a000f52..f1617dbe 100644
--- a/reference/goulden.splitsplit.html
+++ b/reference/goulden.splitsplit.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Split-split-plot experiment of wheat</h1>
-      
+
       <div class="d-none name"><code>goulden.splitsplit.Rd</code></div>
     </div>
 
@@ -92,14 +78,14 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>An interesting split-split plot experiment in which the sub-plot
-  treatments have a 2*5 factorial structure.</p>  
+  treatments have a 2*5 factorial structure.</p>
 <p>An experiment was conducted in 1932 on the experimental field of the
   Dominion Rust Research Laboratory.  The study was designed to
   determine the effect on the incidence of root rot, of variety of
@@ -115,7 +101,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>C. H. Goulden, (1939).
-  <em>Methods of statistical analysis</em>, 1st ed. Page 18. 
+  <em>Methods of statistical analysis</em>, 1st ed. Page 18.
   https://archive.org/stream/methodsofstatist031744mbp</p>
     </div>
     <div class="section level2">
@@ -125,7 +111,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">goulden.splitsplit</span><span class="op">)</span></span></span>
@@ -138,7 +124,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##         out1=block, out2=trt, text=dust, col=inoc, cex=1,</span></span></span>
 <span class="r-in"><span><span class="co">##         main="goulden.splitsplit")</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>        col<span class="op">=</span><span class="va">inoc</span>, num<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"goulden.splitsplit"</span><span class="op">)</span></span></span>
@@ -152,10 +138,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>          <span class="op">+</span> <span class="fu">Error</span><span class="op">(</span><span class="va">block</span><span class="op">/</span><span class="op">(</span><span class="va">gen</span><span class="op">+</span><span class="va">gen</span><span class="op">:</span><span class="va">dust</span><span class="op">:</span><span class="va">dry</span><span class="op">+</span><span class="va">gen</span><span class="op">:</span><span class="va">inoc</span><span class="op">:</span><span class="va">dry</span><span class="op">)</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index c57e918a..cde01ffb 100644
--- a/reference/graybill.heteroskedastic.html
+++ b/reference/graybill.heteroskedastic.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat varieties with heteroskedastic yields</h1>
-      
+
       <div class="d-none name"><code>graybill.heteroskedastic.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -87,13 +73,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Hans-Pieter Piepho, 1994.
   Missing observations in the analysis of stability.
-  <em>Heredity</em>, 72, 141--145.
+  <em>Heredity</em>, 72, 141–145.
   https://doi.org/10.1038/hdy.1994.20</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">graybill.heteroskedastic</span><span class="op">)</span></span></span>
@@ -141,10 +127,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##        G1        G2        G3        G4 </span></span></span>
 <span class="r-in"><span><span class="co">## 4069.3296  138.9424 1423.0797  306.5270 </span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -153,14 +139,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 65713c7d..2d1f348e 100644
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Factorial experiment of cotton in Sudan.</h1>
-      
+
       <div class="d-none name"><code>gregory.cotton.Rd</code></div>
     </div>
 
@@ -83,13 +69,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>spacing</code></dt>
 <dd><p>spacing between plants</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Experiment conducted in Sudan at the Gezira Research Farm in 1929-1930
   and 1930-1931.  The effects on yield of four factors was studied in
-  all possible combinations.</p>  
+  all possible combinations.</p>
 <p>Sowing dates in 1929: D1 = Jul 24, D2 = Aug 11, D3 = Sep 2, D4 = Sep 25.</p>
 <p>Spacing: S1 = 25 cm between holes, S2 = 50 cm, S3 = 75 cm. The usual
   spacing is 50-70 cm.</p>
@@ -103,8 +89,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
-  
+
+
 <p>Gregory, FG and Crowther, F and Lambert, AR (1932).
   The interrelation of factors controlling the production of cotton
   under irrigation in the Sudan.
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gregory.cotton</span><span class="op">)</span></span></span>
@@ -169,10 +155,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="va">gg</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -181,14 +167,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/grover.diallel.html b/reference/grover.diallel.html
index 93c08c90..65c08f00 100644
--- a/reference/grover.diallel.html
+++ b/reference/grover.diallel.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Diallel 6x6 in 4 blocks."><title>Diallel 6x6 — grover.diallel • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Diallel 6x6 — grover.diallel"><meta property="og:description" content="Diallel 6x6 in 4 blocks."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Diallel 6x6 — grover.diallel • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Diallel 6x6 — grover.diallel"><meta name="description" content="Diallel 6x6 in 4 blocks."><meta property="og:description" content="Diallel 6x6 in 4 blocks."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Diallel 6x6</h1>
-      
+
       <div class="d-none name"><code>grover.diallel.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>cross</code></dt>
 <dd><p>a character vector</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">grover.diallel</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">grover.diallel</span></span></span>
 <span class="r-in"><span></span></span>
@@ -134,10 +120,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## ts_P2:P1 == 0   -9.7214     3.2629  -2.979   0.1928    </span></span></span>
 <span class="r-in"><span>  <span class="co">## ts_P2:P2 == 0    7.0899     4.5249   1.567   0.9773    </span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -146,14 +132,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/grover.rcb.subsample.html b/reference/grover.rcb.subsample.html
index 0d2d0a4d..dba91a2f 100644
--- a/reference/grover.rcb.subsample.html
+++ b/reference/grover.rcb.subsample.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="An experiment on rice with 9 fertilizer treatments in 4 blocks,
-  4 hills per plot."><title>Rice RCB with subsamples — grover.rcb.subsample • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Rice RCB with subsamples — grover.rcb.subsample"><meta property="og:description" content="An experiment on rice with 9 fertilizer treatments in 4 blocks,
-  4 hills per plot."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Rice RCB with subsamples</h1>
-      
+
       <div class="d-none name"><code>grover.rcb.subsample.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>unit</code></dt>
 <dd><p>subsample unit</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -102,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">grover.rcb.subsample</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Fixed-effects ANOVA. Matches Grover page 86.</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">tiller</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="va">trt</span> <span class="op">+</span> <span class="va">block</span><span class="op">:</span><span class="va">trt</span>, data<span class="op">=</span><span class="va">grover.rcb.subsample</span><span class="op">)</span><span class="op">)</span></span></span>
@@ -112,10 +98,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## trt         8  11816 1477.00 17.5891 &lt; 2e-16 ***</span></span></span>
 <span class="r-in"><span>  <span class="co">## block:trt  24   4721  196.71  2.3425 0.00158 ** </span></span></span>
 <span class="r-in"><span>  <span class="co">## Residuals 108   9069   83.97                    </span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/gumpertz.pepper.html b/reference/gumpertz.pepper.html
index 3d26ae6c..56ca2afa 100644
--- a/reference/gumpertz.pepper.html
+++ b/reference/gumpertz.pepper.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Phytophtera disease incidence in a pepper field"><title>Phytophtera disease incidence in a pepper field — gumpertz.pepper • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Phytophtera disease incidence in a pepper field — gumpertz.pepper"><meta property="og:description" content="Phytophtera disease incidence in a pepper field"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Phytophtera disease incidence in a pepper field</h1>
-      
+
       <div class="d-none name"><code>gumpertz.pepper.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>leaf</code></dt>
 <dd><p>leaf assay count</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -106,7 +92,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">gumpertz.pepper</span><span class="op">)</span></span></span>
@@ -122,18 +108,18 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Disease presence.  Gumpertz fig 1a, 2a.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">grays</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"#d9d9d9"</span>,<span class="st">"#252525"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">disease</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span><span class="op">|</span><span class="va">field</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">disease</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span><span class="op">|</span><span class="va">field</span>,</span></span>
 <span class="r-in"><span>        col.regions<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'white'</span>,<span class="st">'black'</span><span class="op">)</span>, aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># uncertain aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gumpertz.pepper disease presence"</span>, <span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Soil water.  Gumpertz fig 1b, 2b</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">water</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span><span class="op">|</span><span class="va">field</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">water</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span><span class="op">|</span><span class="va">field</span>,</span></span>
 <span class="r-in"><span>        col.regions<span class="op">=</span><span class="fu">grays</span><span class="op">(</span><span class="fl">5</span><span class="op">)</span>, aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># uncertain aspect</span></span></span>
 <span class="r-in"><span>        at<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">5</span>,<span class="fl">7.5</span>,<span class="fl">10</span>,<span class="fl">12.5</span>,<span class="fl">15</span>,<span class="fl">18</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gumpertz.pepper soil moisture"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Leaf assay.  Gumpertz fig 1c, 2c</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">leaf</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span><span class="op">|</span><span class="va">field</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">leaf</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span><span class="op">|</span><span class="va">field</span>,</span></span>
 <span class="r-in"><span>        col.regions<span class="op">=</span><span class="fu">grays</span><span class="op">(</span><span class="fl">6</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        at<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0</span>,<span class="fl">1</span>,<span class="fl">2</span>,<span class="fl">3</span>,<span class="fl">4</span>,<span class="fl">5</span>,<span class="fl">6</span><span class="op">)</span><span class="op">-</span><span class="fl">.5</span>, aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># uncertain aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"gumpertz.pepper leaf assay"</span>, <span class="op">)</span></span></span>
@@ -150,16 +136,16 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat2</span><span class="op">$</span><span class="va">res21</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/residuals.html" class="external-link">resid</a></span><span class="op">(</span><span class="va">m21</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="kw">if</span><span class="op">(</span><span class="fl">0</span><span class="op">)</span><span class="op">{</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">res21</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">res21</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">quadrat</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"gumpertz.pepper field 2, model 1 residuals"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Still shows obvious trends.  Gumpertz et al add spatial covariates for</span></span></span>
 <span class="r-in"><span>  <span class="co"># neighboring plots, but with only minor improvement in misclassification</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -168,14 +154,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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-  
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index 687fae41..2024ac2c 100644
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+++ b/reference/hadasch.lettuce.html
@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Lettuce resistance to downy mildew resistance (with marker data)</h1>
-      
+
       <div class="d-none name"><code>hadasch.lettuce.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>dmr</code></dt>
 <dd><p>downy mildew resistance</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>A biparental cross of 95 recombinant inbred lines of "Salinas 88"
 (susceptible) and "La Brillante" (highly resistant to downy mildew). The
@@ -102,7 +88,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 marker with alleles A1 (i.e. the reference allele) and A2 was coded as 1
 for A1,A1, -1 for A2,A2 and 0 for A1,A2 and A2,A2.</p>
 <p>The electronic version of the lettuce data are licensed CC-BY 4 and were
-downloaded 20 Feb 2021. 
+downloaded 20 Feb 2021.
 https://figshare.com/articles/dataset/Lettuce_trial_phenotypic_and_marker_data_/8299493</p>
     </div>
     <div class="section level2">
@@ -123,7 +109,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hadasch.lettuce</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hadasch.lettuce.markers</span><span class="op">)</span></span></span>
@@ -154,10 +140,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">p1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/head.html" class="external-link">head</a></span><span class="op">(</span><span class="va">p2</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -166,14 +152,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/hanks.sprinkler.html b/reference/hanks.sprinkler.html
index c1dcf502..3f1a028b 100644
--- a/reference/hanks.sprinkler.html
+++ b/reference/hanks.sprinkler.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Three wheat varieties planted in 3 blocks, with a line sprinkler
-  crossing all whole plots."><title>Wheat yields in a line-source sprinkler experiment — hanks.sprinkler • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat yields in a line-source sprinkler experiment — hanks.sprinkler"><meta property="og:description" content="Three wheat varieties planted in 3 blocks, with a line sprinkler
-  crossing all whole plots."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Wheat yields in a line-source sprinkler experiment — hanks.sprinkler • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat yields in a line-source sprinkler experiment — hanks.sprinkler"><meta name="description" content="Three wheat varieties planted in 3 blocks, with a line sprinkler
+  crossing all whole plots."><meta property="og:description" content="Three wheat varieties planted in 3 blocks, with a line sprinkler
+  crossing all whole plots."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Wheat yields in a line-source sprinkler experiment</h1>
-      
+
       <div class="d-none name"><code>hanks.sprinkler.Rd</code></div>
     </div>
 
@@ -85,7 +71,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>dir</code></dt>
 <dd><p>direction from sprinkler, N/S</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -121,7 +107,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hanks.sprinkler</span><span class="op">)</span></span></span>
@@ -129,7 +115,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># The line sprinkler is vertical between subplots 6 &amp; 7</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">subplot</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">subplot</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">irr</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="va">gen</span>, main<span class="op">=</span><span class="st">"hanks.sprinkler"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -167,7 +153,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                 random<span class="op">=</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="va">block</span><span class="op">:</span><span class="va">dir</span> <span class="op">+</span> <span class="va">block</span><span class="op">:</span><span class="va">irrf</span>,</span></span>
 <span class="r-in"><span>                 resid <span class="op">=</span> <span class="op">~</span> <span class="va">block</span><span class="op">:</span><span class="va">gen</span><span class="op">:</span><span class="fu">corb</span><span class="op">(</span><span class="va">subf</span>, <span class="fl">3</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##                   effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##                    block  0.2195     0.2378    0.92      P 0.5</span></span></span>
 <span class="r-in"><span>    <span class="co">##                block:dir  0.01769    0.03156   0.56      P 0  </span></span></span>
@@ -179,10 +165,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    </span></span>
 <span class="r-in"><span>    <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -191,14 +177,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/hanover.whitepine.html b/reference/hanover.whitepine.html
index f52cefb0..1b819b21 100644
--- a/reference/hanover.whitepine.html
+++ b/reference/hanover.whitepine.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Mating crosses of white pine trees</h1>
-      
+
       <div class="d-none name"><code>hanover.whitepine.Rd</code></div>
     </div>
 
@@ -77,16 +63,16 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>length</code></dt>
 <dd><p>epicotyl length, cm</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Four male (pollen parent) White Pine trees were mated to seven female
   trees and 2654 progeny were grown in four replications, one plot per
   mating in each replication.  Parent trees were sourced from Idaho,
-  USA.  The data are plot means of epicotyl length.</p>  
+  USA.  The data are plot means of epicotyl length.</p>
 <p>Becker (1984) used these data to demonstrate the calculation of
   heritability.</p>
     </div>
@@ -94,7 +80,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Hanover, James W and Barnes, Burton V. (1962).
   Heritability of height growth in year-old western white pine.
-  <em>Proc Forest Genet Workshop</em>. 22, 71--76.</p>
+  <em>Proc Forest Genet Workshop</em>. 22, 71–76.</p>
 <p>Walter A. Becker (1984).
   <em>Manual of Quantitative Genetics</em>, 4th ed. Page 83.</p>
     </div>
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hanover.whitepine</span><span class="op">)</span></span></span>
@@ -155,11 +141,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fl">2</span><span class="op">*</span><span class="op">(</span><span class="va">s2m</span><span class="op">+</span><span class="va">s2f</span><span class="op">)</span><span class="op">/</span><span class="va">vp</span> <span class="co"># heritability male+female .203</span></span></span>
 <span class="r-in"><span>  <span class="co"># As shown in the boxplot, heritability is stronger through the</span></span></span>
 <span class="r-in"><span>  <span class="co"># males than through the females.</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -168,14 +154,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-year uniformity trial in Denmark</h1>
-      
+
       <div class="d-none name"><code>hansen.multi.uniformity.Rd</code></div>
     </div>
 
@@ -83,11 +69,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Uniformity trials were carried out between 1906 and 1911 on two fields
   at Aarslev, Denmark. The yield values are expressed as percent of mean
@@ -95,24 +81,24 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>The scale on the map in Hansen shows "Alen" as the scale. See
   https://en.wikipedia.org/wiki/Alen_(unit_of_length) The Danish alen =
   62.77 cm.</p>
-  
+
 <p>Field A2:</p>
 <p>Based on the map, the field is approximately 60 alen x 70 alen (38 m x
   44 m), but the orientation of the field is not clear.  Plots are
   probably circa 7.4 m on a side.</p>
-<p>Divided into 30 plots -- 6 strips of 5.  The crops grown were: 1907
+<p>Divided into 30 plots – 6 strips of 5.  The crops grown were: 1907
   oats, 1908 rye, 1909 barley, 1910 mangolds, 1911 barley.</p>
 <p>Sanders said: There appeared to be two printer errors in the paper.
   In field A2 the yields given for 1908 add up to 3010 instead of 3000:
   reference to the Fig. 6 given there seemed to indicate that the
   excess lay in row 3 and eventually it was decided to reduce plots 3c
   to 96 and 3f to 84.</p>
-  
-<p>Field E2:</p>  
+
+<p>Field E2:</p>
 <p>Field is approximately 120 alen x 200 alen (76m x 125m).  Plots are
   probably circa 8-9m on a side.</p>
 <p>Divided into 128 plots: 16 strips of 8.  Crops grown: 1906 oats, 1907
-  barley, 1908 seeds, 1909 rye.</p>  
+  barley, 1908 seeds, 1909 rye.</p>
 <p>Sanders said, There was a remarkable oscillation in fertility across
   field E2 in one direction, the 1st, 3rd, ...  15th strips (columns)
   consistently giving much higher yields than the 2nd, 4th, ... 16th
@@ -148,7 +134,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
   The influence of soil heterogeneity on the growth and yield of
   successive crops.
   Journal of Agricultural Science, 18, 163-185.
-  https://archive.org/stream/in.ernet.dli.2015.25895/2015.25895.Journal-Of-Agricultural-Science-Vol-xviii-1928#page/n175</p>  
+  https://archive.org/stream/in.ernet.dli.2015.25895/2015.25895.Journal-Of-Agricultural-Science-Vol-xviii-1928#page/n175</p>
 <p>Sanders, H. G. 1930.
   A note on the value of uniformity trials for subsequent experiments.
   The Journal of Agricultural Science. 20, 63-73.
@@ -158,7 +144,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hansen.multi.uniformity</span><span class="op">)</span></span></span>
@@ -185,10 +171,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">mat2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/filter.html" class="external-link">filter</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">field</span><span class="op">==</span><span class="st">"E2"</span><span class="op">)</span> </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/splom.html" class="external-link">splom</a></span><span class="op">(</span><span class="va">mat2</span>, main<span class="op">=</span><span class="st">"hansen.multi.uniformity field A2"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -197,14 +183,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/haritonenko.sugarbeet.uniformity.html b/reference/haritonenko.sugarbeet.uniformity.html
index 048f7063..bd3fdd50 100644
--- a/reference/haritonenko.sugarbeet.uniformity.html
+++ b/reference/haritonenko.sugarbeet.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of sugar beet in Russia."><title>Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity"><meta property="og:description" content="Uniformity trial of sugar beet in Russia."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sugar beet</h1>
-      
+
       <div class="d-none name"><code>haritonenko.sugarbeet.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>Yield in pfund per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Roemer (1920) says: Haritonenko (36), experiment at Ivanovskoye Agricultural
   Experimental Station, Novgorod Governorate.
@@ -93,7 +79,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>A 'pfund' (Germany pound) is today defined as 500g, but in 1920 might
   have been different, perhaps 467g???</p>
 <p>Field width: 4 plots * (22.5 faden * 7 feet/faden) = 630 feet.</p>
-<p>Field length: 104 plots * (1.33 faden * 7 feet/faden) = 968 feet.</p>  
+<p>Field length: 104 plots * (1.33 faden * 7 feet/faden) = 968 feet.</p>
 <p>Note: Cochran says the plots are 8 x 135 ft. This seems to be based on 1
   faden = 6 feet, but this does not match the total area 5.68 ha.</p>
 <p>Note: The name Haritonenko is sometimes translated into English as:
@@ -121,7 +107,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">haritonenko.sugarbeet.uniformity</span><span class="op">)</span></span></span>
@@ -130,14 +116,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 615.68. # Roemer page 37 says 617</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">104</span><span class="op">*</span><span class="fl">1.33</span><span class="op">*</span><span class="fl">7</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">4</span><span class="op">*</span><span class="fl">22.5</span><span class="op">*</span><span class="fl">7</span><span class="op">)</span>, ticks<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"haritonenko.sugarbeet.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -146,14 +132,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/harris.multi.uniformity.html b/reference/harris.multi.uniformity.html
index 554d66a4..696ee214 100644
--- a/reference/harris.multi.uniformity.html
+++ b/reference/harris.multi.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trials with multiple crops, at Huntley Field Station,
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-  Montana, 1911-1925."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  Montana, 1911-1925."><meta property="og:description" content="Uniformity trials with multiple crops, at Huntley Field Station,
+  Montana, 1911-1925."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials with multiple crops, 15 years on the same land</h1>
-      
+
       <div class="d-none name"><code>harris.multi.uniformity.Rd</code></div>
     </div>
 
@@ -79,24 +65,24 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot (pounds)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The yields given in Harris (1920) (Practical universality...) are given for quarter-plots.</p>
 <p>The yields given in Harris (1920) (Permanence of ...)</p>
-<p>The yields given in Harris (1928) are given for single plots.</p>  
+<p>The yields given in Harris (1928) are given for single plots.</p>
 
 <p>Field width: 2 plots * 317 ft  + 5 feet alley = 639 feet</p>
-<p>Field length: 23 plots * 23.3 feet = 536 feet</p>  
+<p>Field length: 23 plots * 23.3 feet = 536 feet</p>
 <p>All yields here are given in pound per plot.
   The original data in Harris (1920) for the 1911 sugarbeet yields were
   in tons/ac,  (Harris 1920, table 3 footnote), but these were converted
-  to pounds/plot for the purpose of this dataset.</p>  
+  to pounds/plot for the purpose of this dataset.</p>
 <p>Harris (1928) shows a map of the location on page 16.</p>
-<p>Harris (1920):</p>  
+<p>Harris (1920):</p>
 <p>1911: In the spring of 1911 this field was laid out into 46 plots,
   each measuring 23.5 by 317 feet and containing 0.17 acre, arranged in
   two parallel series of 23 plots each. The two series of plots were
@@ -113,7 +99,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   size. The second cutting was harvested from plots one-quarter the
   original size.</p>
 <p>1914: The first and second cuttings in 1914 were weighed for
-  plots one-quarter the original size--that is, 0.0425-acre plots--while
+  plots one-quarter the original size–that is, 0.0425-acre plots–while
   the third cutting was recorded for plots one-third the original
   size. These furnish the data for alfalfa I, II, and III for 1914.
   Total yields for the first and second cuttings in 1913 and 1914 and
@@ -128,8 +114,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>1921 Alfalfa</p>
 <p>1922 Alfalfa, cutting 3</p>
 <p>1923 Alfalfa, cutting 1 and 3</p>
-<p>1914 Alfalfa, cutting 2 and 3</p>  
-<p>Harris (1928):</p>  
+<p>1914 Alfalfa, cutting 2 and 3</p>
+<p>Harris (1928):</p>
 <p>The southeast corner of Series II, the east series, is
   about 80 feet from the main canal, and the southwest corner of Series
   III is about 50 feet from Ouster Coulee. The main project canal
@@ -159,18 +145,18 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   Jour. Agr. Res, 20, 335-356.
   https://naldc.nal.usda.gov/catalog/IND43966236
   https://www.google.com/books/edition/Journal_of_the_American_Society_of_Agron/Zwz0AAAAMAAJ?hl=en&amp;gbpv=1&amp;pg=PA257
-  This has the data for 1911-1919.</p>  
+  This has the data for 1911-1919.</p>
 <p>Harris, J Arthur and Scofield, CS. (1928).
   Further studies on the permanence of differences in the plots of an
   experimental field.
-  Jour. Agr. Res, 36, 15--40.
+  Jour. Agr. Res, 36, 15–40.
   https://naldc.nal.usda.gov/catalog/IND43967538
   This has the data for 1920-1925.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">harris.multi.uniformity</span><span class="op">)</span></span></span>
@@ -207,21 +193,21 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># lower-yielding in 1922-1923.</span></span></span>
 <span class="r-in"><span><span class="co"># Heatmaps for individual year/harvest combinations</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d2</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">xord</span><span class="op">*</span><span class="va">plot</span><span class="op">|</span><span class="va">harv</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d2</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">xord</span><span class="op">*</span><span class="va">plot</span><span class="op">|</span><span class="va">harv</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">536</span><span class="op">/</span><span class="fl">639</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"harris.multi.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Crude fertility map by averaging across years shows probable</span></span></span>
 <span class="r-in"><span><span class="co"># sub-surface water effects</span></span></span>
 <span class="r-in"><span><span class="va">agg</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aggregate.html" class="external-link">aggregate</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">xord</span> <span class="op">+</span> <span class="va">plot</span>, data<span class="op">=</span><span class="va">d2</span>, <span class="va">mean</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">agg</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">xord</span> <span class="op">+</span> <span class="va">plot</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">agg</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">xord</span> <span class="op">+</span> <span class="va">plot</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">536</span><span class="op">/</span><span class="fl">639</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"harris.multi.uniformity fertility"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -230,14 +216,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/harris.wateruse.html b/reference/harris.wateruse.html
index b7a15148..6a74da29 100644
--- a/reference/harris.wateruse.html
+++ b/reference/harris.wateruse.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Water use by horticultural trees"><title>Water use by horticultural trees — harris.wateruse • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Water use by horticultural trees — harris.wateruse"><meta property="og:description" content="Water use by horticultural trees"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Water use by horticultural trees</h1>
-      
+
       <div class="d-none name"><code>harris.wateruse.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>water</code></dt>
 <dd><p>water use, numeric</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,7 +81,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">harris.wateruse</span><span class="op">)</span></span></span>
@@ -219,7 +205,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                  data<span class="op">=</span><span class="va">d22</span>,</span></span>
 <span class="r-in"><span>                  random <span class="op">=</span> <span class="op">~</span> <span class="va">tree</span>,</span></span>
 <span class="r-in"><span>                  residual<span class="op">=</span><span class="op">~</span><span class="va">tree</span><span class="op">:</span><span class="fu"><a href="https://rdrr.io/r/base/Log.html" class="external-link">exp</a></span><span class="op">(</span><span class="va">day</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2a</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2a</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##         effect component std.error z.ratio constr</span></span></span>
 <span class="r-in"><span>    <span class="co">##  tree!tree.var    0.2656   0.1301      2      pos</span></span></span>
 <span class="r-in"><span>    <span class="co">##     R!variance    0.1541   0.01611     9.6    pos</span></span></span>
@@ -266,10 +252,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">##                    R!day.pow   0.8091   0.01581     51    uncon</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -278,14 +264,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index a37ccd93..725d0af5 100644
--- a/reference/harrison.priors.html
+++ b/reference/harrison.priors.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Ranges of analytes in soybean from other authors"><title>Ranges of analytes in soybean from other authors — harrison.priors • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Ranges of analytes in soybean from other authors — harrison.priors"><meta property="og:description" content="Ranges of analytes in soybean from other authors"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Ranges of analytes in soybean from other authors</h1>
-      
+
       <div class="d-none name"><code>harrison.priors.Rd</code></div>
     </div>
 
@@ -76,11 +62,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>number</code></dt>
 <dd><p>number of substances</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Harrison et al. show how to construct an informative Bayesian prior
   from previously-published ranges of concentration for several
@@ -112,7 +98,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">harrison.priors</span><span class="op">)</span></span></span>
@@ -158,10 +144,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu">segplot</span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/rep.html" class="external-link">rep</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">18</span><span class="op">)</span><span class="op">)</span> <span class="op">~</span> <span class="va">min</span><span class="op">+</span><span class="va">max</span>, <span class="va">d1</span>, <span class="fl">4</span>, level<span class="op">=</span><span class="va">d1</span><span class="op">$</span><span class="va">number</span>,</span></span>
 <span class="r-in"><span>          col.regions<span class="op">=</span><span class="st">"gray20"</span>, alpha<span class="op">=</span><span class="fl">.1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -170,14 +156,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index 72a07e19..b067c314 100644
--- a/reference/hartman.tomato.uniformity.html
+++ b/reference/hartman.tomato.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of tomato</h1>
-      
+
       <div class="d-none name"><code>hartman.tomato.uniformity.Rd</code></div>
     </div>
 
@@ -74,20 +60,20 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Grown in Indiana in 1941.</p>
 <p>The column ordinates in this R package dataset are not quite exactly
-  the same as in the field due to the presence of roads.</p>  
+  the same as in the field due to the presence of roads.</p>
 <p>Plants were spaced 3 feet apart in rows 6 feet apart, 330 feet
   long. Each row was divided into 3 sections of 34 plants sparated by
-  strips 12 feet long to provide roadways for vehicles.</p>  
+  strips 12 feet long to provide roadways for vehicles.</p>
 <p>Each row was divided into 4-plant plots, with 8 plots in each section of
   row and with one plant left as a guard at the end of each section.</p>
 <p>There were 49 plants missing out of 3072 total plants, but these have been ignored.</p>
-<p>Note, the data given in Table 1 of Hartman are for 8-plant plots!</p>                                                             
+<p>Note, the data given in Table 1 of Hartman are for 8-plant plots!</p>
 <p>Field width: 3 sections (34 plants * 3 feet) + 2 roads * 12 feet = 330 feet.</p>
 <p>Field length: 32 rows * 6 feet = 192 feet</p>
 <p>As oriented on the page, plots were, on average, 330/12=27.5. feet wide, 6 feet tall.</p>
@@ -115,19 +101,19 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hartman.tomato.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">hartman.tomato.uniformity</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">hartman.tomato.uniformity</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">192</span><span class="op">/</span><span class="fl">330</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"hartman.tomato.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -136,14 +122,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/harvey.lsmeans.html b/reference/harvey.lsmeans.html
index adce3ab0..054999dc 100644
--- a/reference/harvey.lsmeans.html
+++ b/reference/harvey.lsmeans.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans"><meta name="description" content="Average daily gain of 65 steers for 3 lines, 9 sires."><meta property="og:description" content="Average daily gain of 65 steers for 3 lines, 9 sires."><meta property="og:image" content="/logo.png"></head><body>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Average daily gain of 65 steers for 3 lines, 9 sires.</h1>
-      
+
       <div class="d-none name"><code>harvey.lsmeans.Rd</code></div>
     </div>
 
@@ -86,7 +72,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>adg</code></dt>
 <dd><p>average daily gain</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,8 +87,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
-  
+
+
 <p>Harvey, Walter R. (1960).
   Least-squares Analysis of Data with Unequal Subclass Numbers.
   Technical Report ARS No 20-8. USDA, Agricultural Research Service.
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">harvey.lsmeans</span><span class="op">)</span></span></span>
@@ -143,10 +129,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># libs(emmeans)</span></span></span>
 <span class="r-in"><span><span class="co"># emmeans(m0,c('line','sire','damage'))</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -155,14 +141,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/harville.lamb.html b/reference/harville.lamb.html
index e7e422ec..f80f027d 100644
--- a/reference/harville.lamb.html
+++ b/reference/harville.lamb.html
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       <img src="../logo.png" class="logo" alt=""><h1>Birth weight of lambs from different lines/sires</h1>
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+
       <div class="d-none name"><code>harville.lamb.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>lamb birth weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>Weight at birth of 62 lambs. There were 5 distinct lines.</p>  
+    <p>Weight at birth of 62 lambs. There were 5 distinct lines.</p>
 <p>Some sires had multiple lambs. Each dam had one lamb.</p>
 <p>The age of the dam is a category: 1 (1-2 years), 2 (2-3 years) or 3 (over 3 years).</p>
 <p>Note: Jiang, gives the data in table 1.2, but there is a small error.
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">harville.lamb</span><span class="op">)</span></span></span>
@@ -131,10 +117,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## Residual        &lt;NA&gt; &lt;NA&gt; 2.962  1.721 </span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
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+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -143,14 +129,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/hayman.tobacco.html b/reference/hayman.tobacco.html
index 072a6480..bbd39c86 100644
--- a/reference/hayman.tobacco.html
+++ b/reference/hayman.tobacco.html
@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Diallel cross of Aztec tobacco</h1>
-      
+
       <div class="d-none name"><code>hayman.tobacco.Rd</code></div>
     </div>
 
@@ -61,7 +47,7 @@
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p></p><dl><dt><code>year</code></dt>
 <dd><p>year</p></dd>
@@ -78,12 +64,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>day</code></dt>
 <dd><p>mean flowering time (days)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Data was collected in 1951 (Hayman 1954a) and 1952 (Hayman 1954b).</p>
 <p>In each year there were 8 varieties of Aztec tobacco, <em>Nicotiana rustica L.</em>.</p>
 <p>Each cross/self was represented by 10 progeny, in two plots of 5
@@ -99,7 +85,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
+
 
 <p>B. I. Hayman (1954a). The Analysis of Variance of Diallel Tables.
   Biometrics, 10, 235-244.  Table 5, page 241.
@@ -110,7 +96,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p># For 1951 data</p>
 <p>Mohring, Melchinger, Piepho. (2011).
@@ -128,7 +114,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -247,10 +233,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Hayman notes that 1 and 3 do not lie along the line,</span></span></span>
 <span class="r-in"><span>  <span class="co"># so modifies them and re-analyzes.</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -259,14 +245,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/hazell.vegetables.html b/reference/hazell.vegetables.html
index 7c72325f..782cfe18 100644
--- a/reference/hazell.vegetables.html
+++ b/reference/hazell.vegetables.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Gross profit for 4 vegetable crops in 6 years"><title>Gross profit for 4 vegetable crops in 6 years — hazell.vegetables • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Gross profit for 4 vegetable crops in 6 years — hazell.vegetables"><meta property="og:description" content="Gross profit for 4 vegetable crops in 6 years"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Gross profit for 4 vegetable crops in 6 years — hazell.vegetables • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Gross profit for 4 vegetable crops in 6 years — hazell.vegetables"><meta name="description" content="Gross profit for 4 vegetable crops in 6 years"><meta property="og:description" content="Gross profit for 4 vegetable crops in 6 years"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Gross profit for 4 vegetable crops in 6 years</h1>
-      
+
       <div class="d-none name"><code>hazell.vegetables.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>pepper</code></dt>
 <dd><p>Pepper profit, dollars/acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hazell.vegetables</span><span class="op">)</span></span></span>
@@ -189,10 +175,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## [4,] 72.14622 29.24590 84.12452 14.48335</span></span></span>
 <span class="r-in"><span>  <span class="co">## [5,] 68.95226 27.39246 88.61828 15.03700</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -201,14 +187,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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diff --git a/reference/heady.fertilizer.html b/reference/heady.fertilizer.html
index 3fa87cb8..9b00658b 100644
--- a/reference/heady.fertilizer.html
+++ b/reference/heady.fertilizer.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Yield of corn, alfalfa, clover with two fertilizers</h1>
-      
+
       <div class="d-none name"><code>heady.fertilizer.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,7 +80,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>Corn yields are given as bu/acre.
   The corn experiments were grown in 1952 and 1953.  The same test plots
   were used in 1953 and in 1952, but no fertilizer was
-  applied in 1953--any response in yield is due to residual fertilizer
+  applied in 1953–any response in yield is due to residual fertilizer
   from 1952.</p>
 <p>All experiments used an incomplete factorial design.
   Not all treatment combinations were present.</p>
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">heady.fertilizer</span><span class="op">)</span></span></span>
@@ -166,10 +152,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/with.html" class="external-link">with</a></span><span class="op">(</span><span class="va">d4</span>, <span class="fu">plot3d</span><span class="op">(</span><span class="va">N</span>,<span class="va">P</span>,<span class="va">yield</span><span class="op">)</span><span class="op">)</span> <span class="co"># Mostly linear in both N and P</span></span></span>
 <span class="r-in"><span>  <span class="fu">close3d</span><span class="op">(</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -178,14 +164,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index b2b23b42..00757727 100644
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+++ b/reference/heath.cabbage.uniformity.html
@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cabbage.</h1>
-      
+
       <div class="d-none name"><code>heath.cabbage.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>row</code></dt>
 <dd><p>row</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -98,21 +84,21 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">heath.cabbage.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">heath.cabbage.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># Heath Fig 3-1, p. 50</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">12</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">40</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"heath.cabbage.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -121,14 +107,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/heath.raddish.uniformity.html b/reference/heath.raddish.uniformity.html
index 38c752db..e48b9eb4 100644
--- a/reference/heath.raddish.uniformity.html
+++ b/reference/heath.raddish.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of radish in four containers."><title>Uniformity trial of radish — heath.radish.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of radish — heath.radish.uniformity"><meta property="og:description" content="Uniformity trial of radish in four containers."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of radish — heath.radish.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of radish — heath.radish.uniformity"><meta name="description" content="Uniformity trial of radish in four containers."><meta property="og:description" content="Uniformity trial of radish in four containers."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of radish</h1>
-      
+
       <div class="d-none name"><code>heath.raddish.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>weight per plant, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,12 +85,12 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">heath.radish.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">heath.radish.uniformity</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span>, <span class="va">dplyr</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"heath.radish.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -119,10 +105,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># lattice::bwplot(yield ~ inner, dat, horiz=0)</span></span></span>
 <span class="r-in"><span>  <span class="co"># similar to Heath fig 2-2</span></span></span>
 <span class="r-in"><span>  <span class="co"># lattice::histogram( ~ yield|inner, dat, layout=c(1,2), n=20)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -131,14 +117,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/henderson.milkfat.html b/reference/henderson.milkfat.html
index ea9487d8..69fab021 100644
--- a/reference/henderson.milkfat.html
+++ b/reference/henderson.milkfat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Milk fat yields for a single cow</h1>
-      
+
       <div class="d-none name"><code>henderson.milkfat.Rd</code></div>
     </div>
 
@@ -67,7 +53,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/day</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
@@ -81,7 +67,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">henderson.milkfat</span><span class="op">)</span></span></span>
@@ -135,10 +121,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  col <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"black"</span>, <span class="st">"red"</span>, <span class="st">"red"</span>, <span class="st">"blue"</span>, <span class="st">"blue"</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>  cex <span class="op">=</span> <span class="fl">0.8</span>, bty <span class="op">=</span> <span class="st">"n"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -147,14 +133,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/hernandez.nitrogen.html b/reference/hernandez.nitrogen.html
index d595803b..1765f584 100644
--- a/reference/hernandez.nitrogen.html
+++ b/reference/hernandez.nitrogen.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Corn response to nitrogen fertilizer at 5 sites."><title>Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen"><meta property="og:description" content="Corn response to nitrogen fertilizer at 5 sites."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn with nitrogen fertilizer at 5 sites.</h1>
-      
+
       <div class="d-none name"><code>hernandez.nitrogen.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, Mg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -93,7 +79,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hernandez.nitrogen</span><span class="op">)</span></span></span>
@@ -174,10 +160,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## Level     Percentile</span></span></span>
 <span class="r-in"><span>  <span class="co">## 90</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -186,14 +172,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/hessling.argentina.html b/reference/hessling.argentina.html
index 96142bb3..d9bef640 100644
--- a/reference/hessling.argentina.html
+++ b/reference/hessling.argentina.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Relation between wheat yield and weather in Argentina"><title>Relation between wheat yield and weather in Argentina — hessling.argentina • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Relation between wheat yield and weather in Argentina — hessling.argentina"><meta property="og:description" content="Relation between wheat yield and weather in Argentina"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Relation between wheat yield and weather in Argentina — hessling.argentina • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Relation between wheat yield and weather in Argentina — hessling.argentina"><meta name="description" content="Relation between wheat yield and weather in Argentina"><meta property="og:description" content="Relation between wheat yield and weather in Argentina"><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Relation between wheat yield and weather in Argentina</h1>
-      
+
       <div class="d-none name"><code>hessling.argentina.Rd</code></div>
     </div>
 
@@ -109,7 +95,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>t11</code></dt>
 <dd><p>november temp deviation</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -126,7 +112,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hessling.argentina</span><span class="op">)</span></span></span>
@@ -153,10 +139,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">corrgram</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu">corrgram</span><span class="op">(</span><span class="va">dat</span>, main<span class="op">=</span><span class="st">"hessling.argentina - correlations of yield and covariates"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -165,14 +151,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/hildebrand.systems.html b/reference/hildebrand.systems.html
index b04b7811..30a9fb91 100644
--- a/reference/hildebrand.systems.html
+++ b/reference/hildebrand.systems.html
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize for four cropping systems</h1>
-      
+
       <div class="d-none name"><code>hildebrand.systems.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, t/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -89,20 +75,20 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>P. E. Hildebrand, 1984.
   Modified Stability Analysis of Farmer Managed, On-Farm Trials.
-  <em>Agronomy Journal</em>, 76, 271--274.
+  <em>Agronomy Journal</em>, 76, 271–274.
   https://doi.org/10.2134/agronj1984.00021962007600020023x</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>H. P. Piepho, 1998.
   Methods for Comparing the Yield Stability of Cropping Systems.
-  <em>Journal of Agronomy and Crop Science</em>, 180, 193--213.
+  <em>Journal of Agronomy and Crop Science</em>, 180, 193–213.
   https://doi.org/10.1111/j.1439-037X.1998.tb00526.x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hildebrand.systems</span><span class="op">)</span></span></span>
@@ -175,10 +161,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">##  system_LMF!R 0.5294      0.2295   2.3        P 0  </span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
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+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -187,14 +173,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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index d509d9d1..a61bb11f 100644
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Counts of arthropods in a grid-sampled wheat field</h1>
-      
+
       <div class="d-none name"><code>holland.arthropods.Rd</code></div>
     </div>
 
@@ -89,7 +75,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weedcover</code></dt>
 <dd><p>percent weed cover</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,7 +85,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>Holland et al. used SADIE (Spatial Analysis by Distance Indices) to
   look for spatial patterns.  Significant patterns were found for
   N. brevicollis, Carabidae, Lycosidae.  The Lycosidae counts were also
-  significantly associated with weed cover.</p>  
+  significantly associated with weed cover.</p>
 <p>Used with permission of John Holland.</p>
     </div>
     <div class="section level2">
@@ -114,7 +100,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">holland.arthropods</span><span class="op">)</span></span></span>
@@ -145,10 +131,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/levelplot.html" class="external-link">contourplot</a></span><span class="op">(</span><span class="va">weedcover</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, <span class="va">dat</span>, region<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -157,14 +143,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/holshouser.splitstrip.html b/reference/holshouser.splitstrip.html
index ec31d621..b9219b88 100644
--- a/reference/holshouser.splitstrip.html
+++ b/reference/holshouser.splitstrip.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Split-strip-plot of soybeans"><title>Split-strip-plot of soybeans — holshouser.splitstrip • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-strip-plot of soybeans — holshouser.splitstrip"><meta property="og:description" content="Split-strip-plot of soybeans"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Split-strip-plot of soybeans — holshouser.splitstrip • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-strip-plot of soybeans — holshouser.splitstrip"><meta name="description" content="Split-strip-plot of soybeans"><meta property="og:description" content="Split-strip-plot of soybeans"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-strip-plot of soybeans</h1>
-      
+
       <div class="d-none name"><code>holshouser.splitstrip.Rd</code></div>
     </div>
 
@@ -85,7 +71,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">holshouser.splitstrip</span><span class="op">)</span></span></span>
@@ -113,10 +99,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Experiment layout and field trends</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, <span class="co"># unknown aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"holshouser.splitstrip"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">spacing</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">spacing</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">cultivar</span>, <span class="co"># unknown aspect</span></span></span>
 <span class="r-in"><span>          col<span class="op">=</span><span class="va">cultivar</span>, text<span class="op">=</span><span class="va">pop</span>, cex<span class="op">=</span><span class="fl">.8</span>, shorten<span class="op">=</span><span class="st">'none'</span>, col.regions<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'wheat'</span>,<span class="st">'white'</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"holshouser.splitstrip experiment design"</span><span class="op">)</span></span></span>
@@ -152,10 +138,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">##                  block (Intercept) &lt;NA&gt; 3.037  1.743</span></span></span>
 <span class="r-in"><span>  <span class="co">##               Residual        &lt;NA&gt; &lt;NA&gt; 3.928  1.982</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/holtsmark.timothy.uniformity.html b/reference/holtsmark.timothy.uniformity.html
index 1d50f948..5f8b6a15 100644
--- a/reference/holtsmark.timothy.uniformity.html
+++ b/reference/holtsmark.timothy.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of timothy hay circa 1905"><title>Uniformity trial of timothy — holtsmark.timothy.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of timothy — holtsmark.timothy.uniformity"><meta property="og:description" content="Uniformity trial of timothy hay circa 1905"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of timothy — holtsmark.timothy.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of timothy — holtsmark.timothy.uniformity"><meta name="description" content="Uniformity trial of timothy hay circa 1905"><meta property="og:description" content="Uniformity trial of timothy hay circa 1905"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of timothy</h1>
-      
+
       <div class="d-none name"><code>holtsmark.timothy.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot, kg</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Field width: 40 plots * 5 m = 200 m.</p>
 <p>Field length: 6 plots * 5 m = 30 m</p>
@@ -94,7 +80,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   https://books.google.com/books?id=MdM0AQAAMAAJ&amp;pg=PA330
   https://dca.au.dk/publikationer/historiske/planteavl/</p>
 <p>Uber die Fehler, welche bei Feldversuchen, durch die Ungleichartigkeit des Bodens bedingt werden.
-  Die Landwirtschaftlichen Versuchs-Stationen, 65, 1--22. (In German)
+  Die Landwirtschaftlichen Versuchs-Stationen, 65, 1–22. (In German)
   https://books.google.com/books?id=eXA2AQAAMAAJ&amp;pg=PA1</p>
     </div>
     <div class="section level2">
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">holtsmark.timothy.uniformity</span><span class="op">)</span></span></span>
@@ -116,17 +102,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                 check <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/ifelse.html" class="external-link">ifelse</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">floor</a></span><span class="op">(</span><span class="op">(</span><span class="va">row</span><span class="op">+</span><span class="va">col</span><span class="op">)</span><span class="op">/</span><span class="fl">3</span><span class="op">)</span><span class="op">==</span><span class="op">(</span><span class="va">row</span><span class="op">+</span><span class="va">col</span><span class="op">)</span><span class="op">/</span><span class="fl">3</span>, <span class="st">"C"</span>, <span class="st">""</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>                 </span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, text<span class="op">=</span><span class="va">check</span>, show.key<span class="op">=</span><span class="cn">FALSE</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">30</span><span class="op">/</span><span class="fl">200</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"holtsmark.timothy.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># sd(dat$yield) # 2.92 matches Holtsmark p. 348</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/huehn.wheat.html b/reference/huehn.wheat.html
index 5527f0f8..16b498a4 100644
--- a/reference/huehn.wheat.html
+++ b/reference/huehn.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat to illustrate stability statistics</h1>
-      
+
       <div class="d-none name"><code>huehn.wheat.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield dt/ha</p></dd>
 
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 </dl></div>
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     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">huehn.wheat</span><span class="op">)</span></span></span>
@@ -138,10 +124,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## Caribo       10.6 6.98 0.08 34.49 0.01</span></span></span>
 <span class="r-in"><span>  <span class="co">## Cbc710       10.9 8.16 1.78 47.21 1.73</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/hughes.grapes.html b/reference/hughes.grapes.html
index d88d4490..095d20dc 100644
--- a/reference/hughes.grapes.html
+++ b/reference/hughes.grapes.html
@@ -1,58 +1,44 @@
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-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
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-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of grape, disease incidence</h1>
-      
+
       <div class="d-none name"><code>hughes.grapes.Rd</code></div>
     </div>
 
@@ -82,12 +68,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>total</code></dt>
 <dd><p>Number of total leaves per shoot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>These data come from a study of downy mildew on grapes.  The
   experiment was conducted at Wooster, Ohio, on the experimental farm of
   the Ohio Agricultural Research and Development Center, Ohio State
@@ -97,7 +83,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   measured.  For each plot, 5 randomly chosen shoots on each of the 3
   vines were observed.  The canopy was closed and shoots could be
   intertwined.  On each shoot, the total number of leaves and the number
-  of infected leaves were recorded.</p>  
+  of infected leaves were recorded.</p>
 
 <p>Used with permission of Larry Madden.</p>
     </div>
@@ -106,7 +92,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Hughes, G. and Madden, LV. 1995.
   Some methods allowing for aggregated patterns of disease incidence in
   the analysis of data from designed experiments.
-  Plant Pathology, 44, 927--943.
+  Plant Pathology, 44, 927–943.
   https://doi.org/10.1111/j.1365-3059.1995.tb02651.x</p>
     </div>
     <div class="section level2">
@@ -114,13 +100,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>Hans-Pieter Piepho. 1999.
   Analysing disease incidence data from designed experiments by
   generalized linear mixed models.
-  Plant Pathology, 48, 668--684.
+  Plant Pathology, 48, 668–684.
   https://doi.org/10.1046/j.1365-3059.1999.00383.x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hughes.grapes</span><span class="op">)</span></span></span>
@@ -165,10 +151,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                random<span class="op">=</span><span class="op">~</span><span class="fl">1</span><span class="op">|</span><span class="va">plot</span><span class="op">/</span><span class="va">vine</span>, family<span class="op">=</span><span class="va">binomial</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">m3</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -177,14 +163,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/hunter.corn.html b/reference/hunter.corn.html
index e3075ad6..6bdfe371 100644
--- a/reference/hunter.corn.html
+++ b/reference/hunter.corn.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Corn yield response to nitrogen"><title>Multi-environment trial of corn with nitrogen fertilizer — hunter.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn with nitrogen fertilizer — hunter.corn"><meta property="og:description" content="Corn yield response to nitrogen"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of corn with nitrogen fertilizer — hunter.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn with nitrogen fertilizer — hunter.corn"><meta name="description" content="Corn yield response to nitrogen"><meta property="og:description" content="Corn yield response to nitrogen"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn with nitrogen fertilizer</h1>
-      
+
       <div class="d-none name"><code>hunter.corn.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, bu/ac</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hunter.corn</span><span class="op">)</span></span></span>
@@ -112,10 +98,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">nitro</span><span class="op">|</span><span class="va">env</span>, <span class="va">dat</span>, type<span class="op">=</span><span class="st">'b'</span>,</span></span>
 <span class="r-in"><span>main<span class="op">=</span><span class="st">"hunter.corn - nitrogen response curves"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/hutchinson.cotton.uniformity.html b/reference/hutchinson.cotton.uniformity.html
index b9079486..f2beaeac 100644
--- a/reference/hutchinson.cotton.uniformity.html
+++ b/reference/hutchinson.cotton.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton</h1>
-      
+
       <div class="d-none name"><code>hutchinson.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plant, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -83,7 +69,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   with 40 plants in each row. The spacing was 1.5 feet within rows and 4
   feet between rows.</p>
 <p>Field length: 40 plants * 1.5 feet = 60 feet</p>
-<p>Field width: 50 columns * 4 feet = 200 feet</p>  
+<p>Field width: 50 columns * 4 feet = 200 feet</p>
 <p>This data was made available with special help from the staff at
   Rothamsted Research Library.</p>
 <p>Rothamsted library scanned the paper documents to pdf.
@@ -106,19 +92,19 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">hutchinson.cotton.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">hutchinson.cotton.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/desplot/" class="external-link">desplot</a></span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">40</span><span class="op">*</span><span class="fl">1.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">50</span><span class="op">*</span><span class="fl">4</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"hutchinson.cotton.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -127,14 +113,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/igue.sugarcane.uniformity.html b/reference/igue.sugarcane.uniformity.html
index a8d3534c..642cbb1c 100644
--- a/reference/igue.sugarcane.uniformity.html
+++ b/reference/igue.sugarcane.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial with sugarcane</h1>
-      
+
       <div class="d-none name"><code>igue.sugarcane.uniformity.Rd</code></div>
     </div>
 
@@ -74,13 +60,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>A uniformity trial with sugarcane in the state of Sao Paulo, Brazil, in 1982.
-  The field was 40 rows, each 90 m long, with 1.5 m between rows.</p>  
-<p>Field width: 36 plots * 1.5 m = 54 m</p>  
+  The field was 40 rows, each 90 m long, with 1.5 m between rows.</p>
+<p>Field width: 36 plots * 1.5 m = 54 m</p>
 <p>Field length: 42 plots * 2 m = 84 m</p>
     </div>
     <div class="section level2">
@@ -97,7 +83,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -108,14 +94,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span><span class="op">/</span><span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 16.4</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">42</span><span class="op">*</span><span class="fl">2</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">36</span><span class="op">*</span><span class="fl">1.5</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"igue.sugarcane.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -124,14 +110,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index e2222ae7..74e41290 100644
--- a/reference/ilri.sheep.html
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@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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+  cross of Dorper and Red Maasi breeds."><meta property="og:description" content="Birth weight and weaning weight of 882 lambs from a partial diallel
+  cross of Dorper and Red Maasi breeds."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Birth weight and weaning weight of Dorper x Red Maasi lambs</h1>
-      
+
       <div class="d-none name"><code>ilri.sheep.Rd</code></div>
     </div>
 
@@ -100,12 +86,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>ramgen</code></dt>
 <dd><p>ram genotype: D, R</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Red Maasai sheep in East Africa are perceived to be resistant to
   certain parasites.  ILRI decided in 1990 to investigate the degree of
   resistance exhibited by this Red Maasai breed and initiated a study in
@@ -126,7 +112,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   variation in lamb weaning weight. International Livestock Research Institute.
   Permanent link: https://hdl.handle.net/10568/10364
   https://biometrics.ilri.org/CS/case<!-- %20study%204/DatafilesDocs/ -->
-  Retrieved Dec 2011.</p>  
+  Retrieved Dec 2011.</p>
 <p>Used via license: Creative Commons BY-NC-SA 3.0.</p>
     </div>
     <div class="section level2">
@@ -147,7 +133,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ilri.sheep</span><span class="op">)</span></span></span>
@@ -217,10 +203,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## 6   96       10.188482      0.2755387  Estimable</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -229,14 +215,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/immer.sugarbeet.uniformity.html b/reference/immer.sugarbeet.uniformity.html
index d36716c8..758ea33e 100644
--- a/reference/immer.sugarbeet.uniformity.html
+++ b/reference/immer.sugarbeet.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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-  of yield, sugar, purity."><title>Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity"><meta property="og:description" content="Uniformity trial of sugarbeets, at Minnesota, 1930, with measurements
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+  of yield, sugar, purity."><meta property="og:description" content="Uniformity trial of sugarbeets, at Minnesota, 1930, with measurements
+  of yield, sugar, purity."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sugarbeets, measurements of yield, sugar, purity</h1>
-      
+
       <div class="d-none name"><code>immer.sugarbeet.uniformity.Rd</code></div>
     </div>
 
@@ -82,11 +68,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>purity</code></dt>
 <dd><p>apparent purity</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>1930 Experiment</p>
 <p>Beets were planted in rows 22 inches apart, thinned to 1 plant per
@@ -105,7 +91,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   calculated on the basis of 33 beets per plot.</p>
 <p>Immer found that aggregating the data from one row to two
   resulted in a dramatic reduction in the standard error (for yield).</p>
-<p>----------</p>
+<p>———-</p>
 <p>1931 Experiment</p>
 <p>Planted 13 May 1931. Field layout was the same as the previous year.
   Unclear if the same land was used.</p>
@@ -140,17 +126,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Immer numbers rows from the top</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Similar to Immer (1932) figure 2</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">110</span><span class="op">/</span><span class="fl">348</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"immer.sugarbeet.uniformity - 1930 yield"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="immer.sugarbeet.uniformity-1.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span>  <span class="co"># Similar to Immer (1932) figure 3</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">sugar</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">sugar</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">110</span><span class="op">/</span><span class="fl">348</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"immer.sugarbeet.uniformity - 1930 sugar"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="immer.sugarbeet.uniformity-2.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span>  <span class="co"># Similar to Immer (1932) figure 4</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">purity</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">purity</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">110</span><span class="op">/</span><span class="fl">348</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"immer.sugarbeet.uniformity - 1930 purity"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="immer.sugarbeet.uniformity-3.png" alt="" width="700" height="433"></span>
@@ -160,14 +146,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-plt img"><img src="immer.sugarbeet.uniformity-4.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Similar to Immer (1933) figure 1</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1931</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1931</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">110</span><span class="op">/</span><span class="fl">348</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"immer.sugarbeet.uniformity - 1931 yield"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="immer.sugarbeet.uniformity-5.png" alt="" width="700" height="433"></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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diff --git a/reference/index.html b/reference/index.html
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-      <img src="../logo.png" class="logo" alt=""><h1>Function reference</h1>
+      <img src="../logo.png" class="logo" alt=""><h1>Package index</h1>
     </div>
 
     <div class="section level2">
       <h2 id="all-functions">All functions<a class="anchor" aria-label="anchor" href="#all-functions"></a></h2>
-      
-      
 
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-      
-      
-      
+
+
+
+    </div><div class="section level2">
+
+
+
 
       <dl><dt>
-          
-          <code><a href="aastveit.barley.html">aastveit.barley.covs</a></code> <code><a href="aastveit.barley.html">aastveit.barley.height</a></code> 
+
+          <code><a href="aastveit.barley.html">aastveit.barley.covs</a></code> <code><a href="aastveit.barley.html">aastveit.barley.height</a></code>
+
         </dt>
         <dd>Barley heights and environmental covariates in Norway</dd>
       </dl><dl><dt>
-          
-          <code><a href="acorsi.grayleafspot.html">acorsi.grayleafspot</a></code> 
+
+          <code><a href="acorsi.grayleafspot.html">acorsi.grayleafspot</a></code>
+
         </dt>
         <dd>Multi-environment trial evaluating 36 maize genotypes in 9 locations</dd>
       </dl><dl><dt>
-          
-          <code><a href="adugna.sorghum.html">adugna.sorghum</a></code> 
+
+          <code><a href="adugna.sorghum.html">adugna.sorghum</a></code>
+
         </dt>
         <dd>Multi-environment trial of sorghum at 3 locations across 5 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="agridat.html">agridat</a></code> <code><a href="agridat.html">agridat-package</a></code> 
+
+          <code><a href="agridat.html">agridat</a></code> <code><a href="agridat.html">agridat-package</a></code>
+
         </dt>
         <dd>Datasets from agricultural experiments</dd>
       </dl><dl><dt>
-          
-          <code><a href="allcroft.lodging.html">allcroft.lodging</a></code> 
+
+          <code><a href="allcroft.lodging.html">allcroft.lodging</a></code>
+
         </dt>
         <dd>Multi-environment trial of cereal with lodging data</dd>
       </dl><dl><dt>
-          
-          <code><a href="alwan.lamb.html">alwan.lamb</a></code> 
+
+          <code><a href="alwan.lamb.html">alwan.lamb</a></code>
+
         </dt>
         <dd>For the 34 sheep sires, the number of lambs in each of 5 foot shape classes.</dd>
       </dl><dl><dt>
-          
-          <code><a href="ansari.wheat.uniformity.html">ansari.wheat.uniformity</a></code> 
+
+          <code><a href="ansari.wheat.uniformity.html">ansari.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="arankacami.groundnut.uniformity.html">arankacami.groundnut.uniformity</a></code> 
+
+          <code><a href="arankacami.groundnut.uniformity.html">arankacami.groundnut.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of groundnut</dd>
       </dl><dl><dt>
-          
-          <code><a href="archbold.apple.html">archbold.apple</a></code> 
+
+          <code><a href="archbold.apple.html">archbold.apple</a></code>
+
         </dt>
         <dd>Split-split plot experiment of apple trees</dd>
       </dl><dl><dt>
-          
-          <code><a href="ars.earlywhitecorn96.html">ars.earlywhitecorn96</a></code> 
+
+          <code><a href="ars.earlywhitecorn96.html">ars.earlywhitecorn96</a></code>
+
         </dt>
         <dd>Multi-environment trial of early white food corn</dd>
       </dl><dl><dt>
-          
-          <code><a href="australia.soybean.html">australia.soybean</a></code> 
+
+          <code><a href="australia.soybean.html">australia.soybean</a></code>
+
         </dt>
         <dd>Multi-environment trial of soybean in Australia</dd>
       </dl><dl><dt>
-          
-          <code><a href="bachmaier.nitrogen.html">bachmaier.nitrogen</a></code> 
+
+          <code><a href="bachmaier.nitrogen.html">bachmaier.nitrogen</a></code>
+
         </dt>
         <dd>Trial of wheat with nitrogen fertilizer in two fertility zones</dd>
       </dl><dl><dt>
-          
-          <code><a href="bailey.cotton.uniformity.html">bailey.cotton.uniformity</a></code> 
+
+          <code><a href="bailey.cotton.uniformity.html">bailey.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton in Egypt</dd>
       </dl><dl><dt>
-          
-          <code><a href="baker.barley.uniformity.html">baker.barley.uniformity</a></code> 
+
+          <code><a href="baker.barley.uniformity.html">baker.barley.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of barley, 10 years on same ground</dd>
       </dl><dl><dt>
-          
-          <code><a href="baker.strawberry.uniformity.html">baker.strawberry.uniformity</a></code> 
+
+          <code><a href="baker.strawberry.uniformity.html">baker.strawberry.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of strawberry</dd>
       </dl><dl><dt>
-          
-          <code><a href="baker.wheat.uniformity.html">baker.wheat.uniformity</a></code> 
+
+          <code><a href="baker.wheat.uniformity.html">baker.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="bancroft.peanut.uniformity.html">bancroft.peanut.uniformity</a></code> 
+
+          <code><a href="bancroft.peanut.uniformity.html">bancroft.peanut.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of peanuts</dd>
       </dl><dl><dt>
-          
-          <code><a href="barrero.maize.html">barrero.maize</a></code> 
+
+          <code><a href="barrero.maize.html">barrero.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize in Texas.</dd>
       </dl><dl><dt>
-          
-          <code><a href="batchelor.uniformity.html">batchelor.apple.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.lemon.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.navel1.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.navel2.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.valencia.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.walnut.uniformity</a></code> 
+
+          <code><a href="batchelor.uniformity.html">batchelor.apple.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.lemon.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.navel1.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.navel2.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.valencia.uniformity</a></code> <code><a href="batchelor.uniformity.html">batchelor.walnut.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of apples, lemons, oranges, and walnuts</dd>
       </dl><dl><dt>
-          
-          <code><a href="battese.survey.html">battese.survey</a></code> 
+
+          <code><a href="battese.survey.html">battese.survey</a></code>
+
         </dt>
         <dd>Survey and satellite data for corn and soy areas in Iowa</dd>
       </dl><dl><dt>
-          
-          <code><a href="beall.webworms.html">beall.webworms</a></code> 
+
+          <code><a href="beall.webworms.html">beall.webworms</a></code>
+
         </dt>
         <dd>Counts of webworms in a beet field, with insecticide treatments.</dd>
       </dl><dl><dt>
-          
-          <code><a href="beaven.barley.html">beaven.barley</a></code> 
+
+          <code><a href="beaven.barley.html">beaven.barley</a></code>
+
         </dt>
         <dd>Yields of 8 barley varieties in 1913 as used by Student.</dd>
       </dl><dl><dt>
-          
-          <code><a href="becker.chicken.html">becker.chicken</a></code> 
+
+          <code><a href="becker.chicken.html">becker.chicken</a></code>
+
         </dt>
         <dd>Mating crosses of chickens</dd>
       </dl><dl><dt>
-          
-          <code><a href="belamkar.augmented.html">belamkar.augmented</a></code> 
+
+          <code><a href="belamkar.augmented.html">belamkar.augmented</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat with Augmented design</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.bayesian.html">besag.bayesian</a></code> 
+
+          <code><a href="besag.bayesian.html">besag.bayesian</a></code>
+
         </dt>
         <dd>RCB experiment of spring barley in United Kingdom</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.beans.html">besag.beans</a></code> 
+
+          <code><a href="besag.beans.html">besag.beans</a></code>
+
         </dt>
         <dd>Competition experiment in beans with height measurements</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.checks.html">besag.checks</a></code> 
+
+          <code><a href="besag.checks.html">besag.checks</a></code>
+
         </dt>
         <dd>Check variety yields in winter wheat.</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.elbatan.html">besag.elbatan</a></code> 
+
+          <code><a href="besag.elbatan.html">besag.elbatan</a></code>
+
         </dt>
         <dd>RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend.</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.endive.html">besag.endive</a></code> 
+
+          <code><a href="besag.endive.html">besag.endive</a></code>
+
         </dt>
         <dd>Presence of footroot disease in an endive field</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.met.html">besag.met</a></code> 
+
+          <code><a href="besag.met.html">besag.met</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn, incomplete-block design</dd>
       </dl><dl><dt>
-          
-          <code><a href="besag.triticale.html">besag.triticale</a></code> 
+
+          <code><a href="besag.triticale.html">besag.triticale</a></code>
+
         </dt>
         <dd>Four-way factorial agronomic experiment in triticale</dd>
       </dl><dl><dt>
-          
-          <code><a href="blackman.wheat.html">blackman.wheat</a></code> 
+
+          <code><a href="blackman.wheat.html">blackman.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat, conventional and semi-dwarf varieties</dd>
       </dl><dl><dt>
-          
-          <code><a href="bliss.borers.html">bliss.borers</a></code> 
+
+          <code><a href="bliss.borers.html">bliss.borers</a></code>
+
         </dt>
         <dd>Corn borer infestation under four treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="bond.diallel.html">bond.diallel</a></code> 
+
+          <code><a href="bond.diallel.html">bond.diallel</a></code>
+
         </dt>
         <dd>Diallel cross of winter beans</dd>
       </dl><dl><dt>
-          
-          <code><a href="bose.multi.uniformity.html">bose.multi.uniformity</a></code> 
+
+          <code><a href="bose.multi.uniformity.html">bose.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of barley, wheat, lentils</dd>
       </dl><dl><dt>
-          
-          <code><a href="box.cork.html">box.cork</a></code> 
+
+          <code><a href="box.cork.html">box.cork</a></code>
+
         </dt>
         <dd>Weight of cork samples on four sides of trees</dd>
       </dl><dl><dt>
-          
-          <code><a href="bradley.multi.uniformity.html">bradley.multi.uniformity</a></code> 
+
+          <code><a href="bradley.multi.uniformity.html">bradley.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of 4 crops on the same land</dd>
       </dl><dl><dt>
-          
-          <code><a href="brandle.rape.html">brandle.rape</a></code> 
+
+          <code><a href="brandle.rape.html">brandle.rape</a></code>
+
         </dt>
         <dd>Multi-environment trial of rape in Manitoba</dd>
       </dl><dl><dt>
-          
-          <code><a href="brandt.switchback.html">brandt.switchback</a></code> 
+
+          <code><a href="brandt.switchback.html">brandt.switchback</a></code>
+
         </dt>
         <dd>Switchback experiment on dairy cattle, milk yield for two treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="bridges.cucumber.html">bridges.cucumber</a></code> 
+
+          <code><a href="bridges.cucumber.html">bridges.cucumber</a></code>
+
         </dt>
         <dd>Multi-environment trial of cucumbers in a latin square design</dd>
       </dl><dl><dt>
-          
-          <code><a href="broadbalk.wheat.html">broadbalk.wheat</a></code> 
+
+          <code><a href="broadbalk.wheat.html">broadbalk.wheat</a></code>
+
         </dt>
         <dd>Long term wheat yields on Broadbalk fields at Rothamsted.</dd>
       </dl><dl><dt>
-          
-          <code><a href="bryan.corn.uniformity.html">bryan.corn.uniformity</a></code> 
+
+          <code><a href="bryan.corn.uniformity.html">bryan.corn.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of corn at 3 locations in Iowa.</dd>
       </dl><dl><dt>
-          
-          <code><a href="buntaran.wheat.html">buntaran.wheat</a></code> 
+
+          <code><a href="buntaran.wheat.html">buntaran.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat in Sweden in 2016.</dd>
       </dl><dl><dt>
-          
-          <code><a href="burgueno.alpha.html">burgueno.alpha</a></code> 
+
+          <code><a href="burgueno.alpha.html">burgueno.alpha</a></code>
+
         </dt>
         <dd>Incomplete block alpha design</dd>
       </dl><dl><dt>
-          
-          <code><a href="burgueno.rowcol.html">burgueno.rowcol</a></code> 
+
+          <code><a href="burgueno.rowcol.html">burgueno.rowcol</a></code>
+
         </dt>
         <dd>Row-column design</dd>
       </dl><dl><dt>
-          
-          <code><a href="burgueno.unreplicated.html">burgueno.unreplicated</a></code> 
+
+          <code><a href="burgueno.unreplicated.html">burgueno.unreplicated</a></code>
+
         </dt>
         <dd>Field experiment with unreplicated genotypes plus one repeated check.</dd>
       </dl><dl><dt>
-          
-          <code><a href="butron.maize.html">butron.maize</a></code> 
+
+          <code><a href="butron.maize.html">butron.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize with pedigrees</dd>
       </dl><dl><dt>
-          
-          <code><a href="byers.apple.html">byers.apple</a></code> 
+
+          <code><a href="byers.apple.html">byers.apple</a></code>
+
         </dt>
         <dd>Diameters of apples</dd>
       </dl><dl><dt>
-          
-          <code><a href="caribbean.maize.html">caribbean.maize</a></code> 
+
+          <code><a href="caribbean.maize.html">caribbean.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize with fertilization</dd>
       </dl><dl><dt>
-          
-          <code><a href="carlson.germination.html">carlson.germination</a></code> 
+
+          <code><a href="carlson.germination.html">carlson.germination</a></code>
+
         </dt>
         <dd>Germination of alfalfa seeds at various salt concentrations</dd>
       </dl><dl><dt>
-          
-          <code><a href="carmer.density.html">carmer.density</a></code> 
+
+          <code><a href="carmer.density.html">carmer.density</a></code>
+
         </dt>
         <dd>Nonlinear maize yield-density model</dd>
       </dl><dl><dt>
-          
-          <code><a href="cate.potassium.html">cate.potassium</a></code> 
+
+          <code><a href="cate.potassium.html">cate.potassium</a></code>
+
         </dt>
         <dd>Relative cotton yield for different soil potassium concentrations</dd>
       </dl><dl><dt>
-          
-          <code><a href="chakravertti.factorial.html">chakravertti.factorial</a></code> 
+
+          <code><a href="chakravertti.factorial.html">chakravertti.factorial</a></code>
+
         </dt>
         <dd>Factorial experiment of rice, 3x5x3x3</dd>
       </dl><dl><dt>
-          
-          <code><a href="chinloy.fractionalfactorial.html">chinloy.fractionalfactorial</a></code> 
+
+          <code><a href="chinloy.fractionalfactorial.html">chinloy.fractionalfactorial</a></code>
+
         </dt>
         <dd>Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3</dd>
       </dl><dl><dt>
-          
-          <code><a href="christidis.competition.html">christidis.competition</a></code> 
+
+          <code><a href="christidis.competition.html">christidis.competition</a></code>
+
         </dt>
         <dd>Competition between varieties in cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="christidis.cotton.uniformity.html">christidis.cotton.uniformity</a></code> 
+
+          <code><a href="christidis.cotton.uniformity.html">christidis.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="christidis.wheat.uniformity.html">christidis.wheat.uniformity</a></code> 
+
+          <code><a href="christidis.wheat.uniformity.html">christidis.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="cleveland.soil.html">cleveland.soil</a></code> 
+
+          <code><a href="cleveland.soil.html">cleveland.soil</a></code>
+
         </dt>
         <dd>Soil resistivity in a field</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.beets.html">cochran.beets</a></code> 
+
+          <code><a href="cochran.beets.html">cochran.beets</a></code>
+
         </dt>
         <dd>Yield and number of plants in a sugarbeet fertilizer experiment</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.bib.html">cochran.bib</a></code> 
+
+          <code><a href="cochran.bib.html">cochran.bib</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn, balanced incomplete block design</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.crd.html">cochran.crd</a></code> 
+
+          <code><a href="cochran.crd.html">cochran.crd</a></code>
+
         </dt>
         <dd>Potato scab infection with sulfur treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.eelworms.html">cochran.eelworms</a></code> 
+
+          <code><a href="cochran.eelworms.html">cochran.eelworms</a></code>
+
         </dt>
         <dd>Counts of eelworms before and after fumigant treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.factorial.html">cochran.factorial</a></code> 
+
+          <code><a href="cochran.factorial.html">cochran.factorial</a></code>
+
         </dt>
         <dd>Factorial experiment of beans, 2x2x2x2</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.latin.html">cochran.latin</a></code> 
+
+          <code><a href="cochran.latin.html">cochran.latin</a></code>
+
         </dt>
         <dd>Latin square design in wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.lattice.html">cochran.lattice</a></code> 
+
+          <code><a href="cochran.lattice.html">cochran.lattice</a></code>
+
         </dt>
         <dd>Balanced lattice experiment in cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="cochran.wireworms.html">cochran.wireworms</a></code> 
+
+          <code><a href="cochran.wireworms.html">cochran.wireworms</a></code>
+
         </dt>
         <dd>Wireworms controlled by fumigants in a latin square</dd>
       </dl><dl><dt>
-          
-          <code><a href="connolly.potato.html">connolly.potato</a></code> 
+
+          <code><a href="connolly.potato.html">connolly.potato</a></code>
+
         </dt>
         <dd>Potato yields in single-drill plots</dd>
       </dl><dl><dt>
-          
-          <code><a href="coombs.rice.uniformity.html">coombs.rice.uniformity</a></code> 
+
+          <code><a href="coombs.rice.uniformity.html">coombs.rice.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of rice in Malaysia</dd>
       </dl><dl><dt>
-          
-          <code><a href="cornelius.maize.html">cornelius.maize</a></code> 
+
+          <code><a href="cornelius.maize.html">cornelius.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize for 9 cultivars at 20 locations.</dd>
       </dl><dl><dt>
-          
-          <code><a href="corsten.interaction.html">corsten.interaction</a></code> 
+
+          <code><a href="corsten.interaction.html">corsten.interaction</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn</dd>
       </dl><dl><dt>
-          
-          <code><a href="cox.stripsplit.html">cox.stripsplit</a></code> 
+
+          <code><a href="cox.stripsplit.html">cox.stripsplit</a></code>
+
         </dt>
         <dd>Strip-split-plot of barley with fertilizer, calcium, and soil factors.</dd>
       </dl><dl><dt>
-          
-          <code><a href="cramer.cucumber.html">cramer.cucumber</a></code> 
+
+          <code><a href="cramer.cucumber.html">cramer.cucumber</a></code>
+
         </dt>
         <dd>Cucumber yields and quantitative traits</dd>
       </dl><dl><dt>
-          
-          <code><a href="crampton.pig.html">crampton.pig</a></code> 
+
+          <code><a href="crampton.pig.html">crampton.pig</a></code>
+
         </dt>
         <dd>Weight gain in pigs for different treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="crossa.wheat.html">crossa.wheat</a></code> 
+
+          <code><a href="crossa.wheat.html">crossa.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat for 18 genotypes at 25 locations</dd>
       </dl><dl><dt>
-          
-          <code><a href="crowder.seeds.html">crowder.seeds</a></code> 
+
+          <code><a href="crowder.seeds.html">crowder.seeds</a></code>
+
         </dt>
         <dd>Germination of Orobanche seeds for two genotypes and two treatments.</dd>
       </dl><dl><dt>
-          
-          <code><a href="cullis.earlygen.html">cullis.earlygen</a></code> 
+
+          <code><a href="cullis.earlygen.html">cullis.earlygen</a></code>
+
         </dt>
         <dd>Early generation variety trial in wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="damesa.maize.html">damesa.maize</a></code> 
+
+          <code><a href="damesa.maize.html">damesa.maize</a></code>
+
         </dt>
         <dd>Incomplete-block experiment of maize in Ethiopia.</dd>
       </dl><dl><dt>
-          
-          <code><a href="darwin.maize.html">darwin.maize</a></code> 
+
+          <code><a href="darwin.maize.html">darwin.maize</a></code>
+
         </dt>
         <dd>Darwin's maize data of crossed/inbred plant heights</dd>
       </dl><dl><dt>
-          
-          <code><a href="dasilva.maize.html">dasilva.maize</a></code> 
+
+          <code><a href="dasilva.maize.html">dasilva.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize</dd>
       </dl><dl><dt>
-          
-          <code><a href="dasilva.soybean.uniformity.html">dasilva.soybean.uniformity</a></code> 
+
+          <code><a href="dasilva.soybean.uniformity.html">dasilva.soybean.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of soybean</dd>
       </dl><dl><dt>
-          
-          <code><a href="davidian.soybean.html">davidian.soybean</a></code> 
+
+          <code><a href="davidian.soybean.html">davidian.soybean</a></code>
+
         </dt>
         <dd>Growth of soybean varieties in 3 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="davies.pasture.uniformity.html">davies.pasture.uniformity</a></code> 
+
+          <code><a href="davies.pasture.uniformity.html">davies.pasture.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of pasture.</dd>
       </dl><dl><dt>
-          
-          <code><a href="day.wheat.uniformity.html">day.wheat.uniformity</a></code> 
+
+          <code><a href="day.wheat.uniformity.html">day.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="denis.missing.html">denis.missing</a></code> 
+
+          <code><a href="denis.missing.html">denis.missing</a></code>
+
         </dt>
         <dd>Multi-environment trial with structured missing values</dd>
       </dl><dl><dt>
-          
-          <code><a href="denis.ryegrass.html">denis.ryegrass</a></code> 
+
+          <code><a href="denis.ryegrass.html">denis.ryegrass</a></code>
+
         </dt>
         <dd>Multi-environment trial of perennial ryegrass in France</dd>
       </dl><dl><dt>
-          
-          <code><a href="depalluel.sheep.html">depalluel.sheep</a></code> 
+
+          <code><a href="depalluel.sheep.html">depalluel.sheep</a></code>
+
         </dt>
         <dd>Latin square of four breeds of sheep with four diets</dd>
       </dl><dl><dt>
-          
-          <code><a href="devries.pine.html">devries.pine</a></code> 
+
+          <code><a href="devries.pine.html">devries.pine</a></code>
+
         </dt>
         <dd>Graeco-Latin Square experiment in pine</dd>
       </dl><dl><dt>
-          
-          <code><a href="digby.jointregression.html">digby.jointregression</a></code> 
+
+          <code><a href="digby.jointregression.html">digby.jointregression</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="diggle.cow.html">diggle.cow</a></code> 
+
+          <code><a href="diggle.cow.html">diggle.cow</a></code>
+
         </dt>
         <dd>Bodyweight of cows in a 2-by-2 factorial experiment</dd>
       </dl><dl><dt>
-          
-          <code><a href="draper.safflower.uniformity.html">draper.safflower.uniformity</a></code> 
+
+          <code><a href="draper.safflower.uniformity.html">draper.safflower.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of safflower</dd>
       </dl><dl><dt>
-          
-          <code><a href="ducker.groundnut.uniformity.html">ducker.groundnut.uniformity</a></code> 
+
+          <code><a href="ducker.groundnut.uniformity.html">ducker.groundnut.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of groundnut</dd>
       </dl><dl><dt>
-          
-          <code><a href="durban.competition.html">durban.competition</a></code> 
+
+          <code><a href="durban.competition.html">durban.competition</a></code>
+
         </dt>
         <dd>Sugar beet yields with competition effects</dd>
       </dl><dl><dt>
-          
-          <code><a href="durban.rowcol.html">durban.rowcol</a></code> 
+
+          <code><a href="durban.rowcol.html">durban.rowcol</a></code>
+
         </dt>
         <dd>Row-column experiment of spring barley, many varieties</dd>
       </dl><dl><dt>
-          
-          <code><a href="durban.splitplot.html">durban.splitplot</a></code> 
+
+          <code><a href="durban.splitplot.html">durban.splitplot</a></code>
+
         </dt>
         <dd>Split-plot experiment of barley with fungicide treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="eden.nonnormal.html">eden.nonnormal</a></code> 
+
+          <code><a href="eden.nonnormal.html">eden.nonnormal</a></code>
+
         </dt>
         <dd>Height of barley plants in a study of non-normal data</dd>
       </dl><dl><dt>
-          
-          <code><a href="eden.potato.html">eden.potato</a></code> 
+
+          <code><a href="eden.potato.html">eden.potato</a></code>
+
         </dt>
         <dd>Potato yields in response to potash and nitrogen fertilizer</dd>
       </dl><dl><dt>
-          
-          <code><a href="eden.tea.uniformity.html">eden.tea.uniformity</a></code> 
+
+          <code><a href="eden.tea.uniformity.html">eden.tea.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of tea</dd>
       </dl><dl><dt>
-          
-          <code><a href="edwards.oats.html">edwards.oats</a></code> 
+
+          <code><a href="edwards.oats.html">edwards.oats</a></code>
+
         </dt>
         <dd>Multi-environment trial of oats in United States, 5 locations, 7 years.</dd>
       </dl><dl><dt>
-          
-          <code><a href="engelstad.nitro.html">engelstad.nitro</a></code> 
+
+          <code><a href="engelstad.nitro.html">engelstad.nitro</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn with nitrogen fertilizer</dd>
       </dl><dl><dt>
-          
-          <code><a href="evans.sugarcane.uniformity.html">evans.sugarcane.uniformity</a></code> 
+
+          <code><a href="evans.sugarcane.uniformity.html">evans.sugarcane.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sugarcane</dd>
       </dl><dl><dt>
-          
-          <code><a href="fan.stability.html">fan.stability</a></code> 
+
+          <code><a href="fan.stability.html">fan.stability</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize hybrids in China</dd>
       </dl><dl><dt>
-          
-          <code><a href="federer.diagcheck.html">federer.diagcheck</a></code> 
+
+          <code><a href="federer.diagcheck.html">federer.diagcheck</a></code>
+
         </dt>
         <dd>Wheat experiment with diagonal checks</dd>
       </dl><dl><dt>
-          
-          <code><a href="federer.tobacco.html">federer.tobacco</a></code> 
+
+          <code><a href="federer.tobacco.html">federer.tobacco</a></code>
+
         </dt>
         <dd>RCB of tobacco, height plants exposed to radiation</dd>
       </dl><dl><dt>
-          
-          <code><a href="fisher.barley.html">fisher.barley</a></code> 
+
+          <code><a href="fisher.barley.html">fisher.barley</a></code>
+
         </dt>
         <dd>Multi-environment trial of 5 barley varieties, 6 locations, 2 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="fisher.latin.html">fisher.latin</a></code> 
+
+          <code><a href="fisher.latin.html">fisher.latin</a></code>
+
         </dt>
         <dd>Latin square experiment on mangolds</dd>
       </dl><dl><dt>
-          
-          <code><a href="forster.wheat.uniformity.html">forster.wheat.uniformity</a></code> 
+
+          <code><a href="forster.wheat.uniformity.html">forster.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat in Australia.</dd>
       </dl><dl><dt>
-          
-          <code><a href="foulley.calving.html">foulley.calving</a></code> 
+
+          <code><a href="foulley.calving.html">foulley.calving</a></code>
+
         </dt>
         <dd>Calving difficulty by calf sex and age of dam</dd>
       </dl><dl><dt>
-          
-          <code><a href="fox.wheat.html">fox.wheat</a></code> 
+
+          <code><a href="fox.wheat.html">fox.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat, 22 varieties at 14 sites in Australia</dd>
       </dl><dl><dt>
-          
-          <code><a href="garber.multi.uniformity.html">garber.multi.uniformity</a></code> 
+
+          <code><a href="garber.multi.uniformity.html">garber.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of oat hay and wheat grain</dd>
       </dl><dl><dt>
-          
-          <code><a href="gartner.corn.html">gartner.corn</a></code> 
+
+          <code><a href="gartner.corn.html">gartner.corn</a></code>
+
         </dt>
         <dd>Yield monitor data from a corn field in Minnesota</dd>
       </dl><dl><dt>
-          
-          <code><a href="gathmann.bt.html">gathmann.bt</a></code> 
+
+          <code><a href="gathmann.bt.html">gathmann.bt</a></code>
+
         </dt>
         <dd>Impact of Bt corn on non-target species</dd>
       </dl><dl><dt>
-          
-          <code><a href="gauch.soy.html">gauch.soy</a></code> 
+
+          <code><a href="gauch.soy.html">gauch.soy</a></code>
+
         </dt>
         <dd>Multi-environment trial of soybeans in New York, 1977 to 1988</dd>
       </dl><dl><dt>
-          
-          <code><a href="george.wheat.html">george.wheat</a></code> 
+
+          <code><a href="george.wheat.html">george.wheat</a></code>
+
         </dt>
         <dd>Multi-location/year breeding trial in California</dd>
       </dl><dl><dt>
-          
-          <code><a href="giles.wheat.html">giles.wheat</a></code> 
+
+          <code><a href="giles.wheat.html">giles.wheat</a></code>
+
         </dt>
         <dd>Straw length and ear emergence for wheat genotypes.</dd>
       </dl><dl><dt>
-          
-          <code><a href="gilmour.serpentine.html">gilmour.serpentine</a></code> 
+
+          <code><a href="gilmour.serpentine.html">gilmour.serpentine</a></code>
+
         </dt>
         <dd>Wheat yield in South Australia with serpentine row/col effects</dd>
       </dl><dl><dt>
-          
-          <code><a href="gilmour.slatehall.html">gilmour.slatehall</a></code> 
+
+          <code><a href="gilmour.slatehall.html">gilmour.slatehall</a></code>
+
         </dt>
         <dd>Slate Hall Farm 1978</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.fractionalfactorial.html">gomez.fractionalfactorial</a></code> 
+
+          <code><a href="gomez.fractionalfactorial.html">gomez.fractionalfactorial</a></code>
+
         </dt>
         <dd>Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.groupsplit.html">gomez.groupsplit</a></code> 
+
+          <code><a href="gomez.groupsplit.html">gomez.groupsplit</a></code>
+
         </dt>
         <dd>Group balanced split-plot design in rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.heterogeneity.html">gomez.heterogeneity</a></code> 
+
+          <code><a href="gomez.heterogeneity.html">gomez.heterogeneity</a></code>
+
         </dt>
         <dd>RCB experiment of rice, heterogeneity of regressions</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.heteroskedastic.html">gomez.heteroskedastic</a></code> 
+
+          <code><a href="gomez.heteroskedastic.html">gomez.heteroskedastic</a></code>
+
         </dt>
         <dd>RCB experiment of rice, heteroskedastic varieties</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.multilocsplitplot.html">gomez.multilocsplitplot</a></code> 
+
+          <code><a href="gomez.multilocsplitplot.html">gomez.multilocsplitplot</a></code>
+
         </dt>
         <dd>Multi-environment trial of rice, split-plot design</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.nitrogen.html">gomez.nitrogen</a></code> 
+
+          <code><a href="gomez.nitrogen.html">gomez.nitrogen</a></code>
+
         </dt>
         <dd>Soil nitrogen at three times for eight fertilizer treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.nonnormal1.html">gomez.nonnormal1</a></code> 
+
+          <code><a href="gomez.nonnormal1.html">gomez.nonnormal1</a></code>
+
         </dt>
         <dd>Insecticide treatment effectiveness</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.nonnormal2.html">gomez.nonnormal2</a></code> 
+
+          <code><a href="gomez.nonnormal2.html">gomez.nonnormal2</a></code>
+
         </dt>
         <dd>RCB experiment of rice, measuring white heads</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.nonnormal3.html">gomez.nonnormal3</a></code> 
+
+          <code><a href="gomez.nonnormal3.html">gomez.nonnormal3</a></code>
+
         </dt>
         <dd>RCB experiment of rice, 12 varieties with leafhopper survival</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.rice.uniformity.html">gomez.rice.uniformity</a></code> 
+
+          <code><a href="gomez.rice.uniformity.html">gomez.rice.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.seedrate.html">gomez.seedrate</a></code> 
+
+          <code><a href="gomez.seedrate.html">gomez.seedrate</a></code>
+
         </dt>
         <dd>RCB experiment of rice, 6 densities</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.splitplot.subsample.html">gomez.splitplot.subsample</a></code> 
+
+          <code><a href="gomez.splitplot.subsample.html">gomez.splitplot.subsample</a></code>
+
         </dt>
         <dd>Split-plot experiment of rice, with subsamples</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.splitsplit.html">gomez.splitsplit</a></code> 
+
+          <code><a href="gomez.splitsplit.html">gomez.splitsplit</a></code>
+
         </dt>
         <dd>Split-split-plot experiment of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.stripplot.html">gomez.stripplot</a></code> 
+
+          <code><a href="gomez.stripplot.html">gomez.stripplot</a></code>
+
         </dt>
         <dd>Strip-plot experiment of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.stripsplitplot.html">gomez.stripsplitplot</a></code> 
+
+          <code><a href="gomez.stripsplitplot.html">gomez.stripsplitplot</a></code>
+
         </dt>
         <dd>Strip-split-plot experiment of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="gomez.wetdry.html">gomez.wetdry</a></code> 
+
+          <code><a href="gomez.wetdry.html">gomez.wetdry</a></code>
+
         </dt>
         <dd>Rice yield in wet &amp; dry seasons with nitrogen fertilizer treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="gotway.hessianfly.html">gotway.hessianfly</a></code> 
+
+          <code><a href="gotway.hessianfly.html">gotway.hessianfly</a></code>
+
         </dt>
         <dd>Hessian fly damage to wheat varieties</dd>
       </dl><dl><dt>
-          
-          <code><a href="goulden.barley.uniformity.html">goulden.barley.uniformity</a></code> 
+
+          <code><a href="goulden.barley.uniformity.html">goulden.barley.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of barley</dd>
       </dl><dl><dt>
-          
-          <code><a href="goulden.eggs.html">goulden.eggs</a></code> 
+
+          <code><a href="goulden.eggs.html">goulden.eggs</a></code>
+
         </dt>
         <dd>Sample of egg weights on 24 consecutive days</dd>
       </dl><dl><dt>
-          
-          <code><a href="goulden.latin.html">goulden.latin</a></code> 
+
+          <code><a href="goulden.latin.html">goulden.latin</a></code>
+
         </dt>
         <dd>Latin square experiment for testing fungicide</dd>
       </dl><dl><dt>
-          
-          <code><a href="goulden.splitsplit.html">goulden.splitsplit</a></code> 
+
+          <code><a href="goulden.splitsplit.html">goulden.splitsplit</a></code>
+
         </dt>
         <dd>Split-split-plot experiment of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="graybill.heteroskedastic.html">graybill.heteroskedastic</a></code> 
+
+          <code><a href="graybill.heteroskedastic.html">graybill.heteroskedastic</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat varieties with heteroskedastic yields</dd>
       </dl><dl><dt>
-          
-          <code><a href="gregory.cotton.html">gregory.cotton</a></code> 
+
+          <code><a href="gregory.cotton.html">gregory.cotton</a></code>
+
         </dt>
         <dd>Factorial experiment of cotton in Sudan.</dd>
       </dl><dl><dt>
-          
-          <code><a href="grover.diallel.html">grover.diallel</a></code> 
+
+          <code><a href="grover.diallel.html">grover.diallel</a></code>
+
         </dt>
         <dd>Diallel 6x6</dd>
       </dl><dl><dt>
-          
-          <code><a href="grover.rcb.subsample.html">grover.rcb.subsample</a></code> 
+
+          <code><a href="grover.rcb.subsample.html">grover.rcb.subsample</a></code>
+
         </dt>
         <dd>Rice RCB with subsamples</dd>
       </dl><dl><dt>
-          
-          <code><a href="gumpertz.pepper.html">gumpertz.pepper</a></code> 
+
+          <code><a href="gumpertz.pepper.html">gumpertz.pepper</a></code>
+
         </dt>
         <dd>Phytophtera disease incidence in a pepper field</dd>
       </dl><dl><dt>
-          
-          <code><a href="hadasch.lettuce.html">hadasch.lettuce</a></code> 
+
+          <code><a href="hadasch.lettuce.html">hadasch.lettuce</a></code>
+
         </dt>
         <dd>Lettuce resistance to downy mildew resistance (with marker data)</dd>
       </dl><dl><dt>
-          
-          <code><a href="hanks.sprinkler.html">hanks.sprinkler</a></code> 
+
+          <code><a href="hanks.sprinkler.html">hanks.sprinkler</a></code>
+
         </dt>
         <dd>Wheat yields in a line-source sprinkler experiment</dd>
       </dl><dl><dt>
-          
-          <code><a href="hanover.whitepine.html">hanover.whitepine</a></code> 
+
+          <code><a href="hanover.whitepine.html">hanover.whitepine</a></code>
+
         </dt>
         <dd>Mating crosses of white pine trees</dd>
       </dl><dl><dt>
-          
-          <code><a href="hansen.multi.uniformity.html">hansen.multi.uniformity</a></code> 
+
+          <code><a href="hansen.multi.uniformity.html">hansen.multi.uniformity</a></code>
+
         </dt>
         <dd>Multi-year uniformity trial in Denmark</dd>
       </dl><dl><dt>
-          
-          <code><a href="haritonenko.sugarbeet.uniformity.html">haritonenko.sugarbeet.uniformity</a></code> 
+
+          <code><a href="haritonenko.sugarbeet.uniformity.html">haritonenko.sugarbeet.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sugar beet</dd>
       </dl><dl><dt>
-          
-          <code><a href="harris.multi.uniformity.html">harris.multi.uniformity</a></code> 
+
+          <code><a href="harris.multi.uniformity.html">harris.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials with multiple crops, 15 years on the same land</dd>
       </dl><dl><dt>
-          
-          <code><a href="harris.wateruse.html">harris.wateruse</a></code> 
+
+          <code><a href="harris.wateruse.html">harris.wateruse</a></code>
+
         </dt>
         <dd>Water use by horticultural trees</dd>
       </dl><dl><dt>
-          
-          <code><a href="harrison.priors.html">harrison.priors</a></code> 
+
+          <code><a href="harrison.priors.html">harrison.priors</a></code>
+
         </dt>
         <dd>Ranges of analytes in soybean from other authors</dd>
       </dl><dl><dt>
-          
-          <code><a href="hartman.tomato.uniformity.html">hartman.tomato.uniformity</a></code> 
+
+          <code><a href="hartman.tomato.uniformity.html">hartman.tomato.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of tomato</dd>
       </dl><dl><dt>
-          
-          <code><a href="harvey.lsmeans.html">harvey.lsmeans</a></code> 
+
+          <code><a href="harvey.lsmeans.html">harvey.lsmeans</a></code>
+
         </dt>
         <dd>Average daily gain of 65 steers for 3 lines, 9 sires.</dd>
       </dl><dl><dt>
-          
-          <code><a href="harville.lamb.html">harville.lamb</a></code> 
+
+          <code><a href="harville.lamb.html">harville.lamb</a></code>
+
         </dt>
         <dd>Birth weight of lambs from different lines/sires</dd>
       </dl><dl><dt>
-          
-          <code><a href="hayman.tobacco.html">hayman.tobacco</a></code> 
+
+          <code><a href="hayman.tobacco.html">hayman.tobacco</a></code>
+
         </dt>
         <dd>Diallel cross of Aztec tobacco</dd>
       </dl><dl><dt>
-          
-          <code><a href="hazell.vegetables.html">hazell.vegetables</a></code> 
+
+          <code><a href="hazell.vegetables.html">hazell.vegetables</a></code>
+
         </dt>
         <dd>Gross profit for 4 vegetable crops in 6 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="heady.fertilizer.html">heady.fertilizer</a></code> 
+
+          <code><a href="heady.fertilizer.html">heady.fertilizer</a></code>
+
         </dt>
         <dd>Yield of corn, alfalfa, clover with two fertilizers</dd>
       </dl><dl><dt>
-          
-          <code><a href="heath.cabbage.uniformity.html">heath.cabbage.uniformity</a></code> 
+
+          <code><a href="heath.cabbage.uniformity.html">heath.cabbage.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cabbage.</dd>
       </dl><dl><dt>
-          
-          <code><a href="heath.raddish.uniformity.html">heath.radish.uniformity</a></code> 
+
+          <code><a href="heath.raddish.uniformity.html">heath.radish.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of radish</dd>
       </dl><dl><dt>
-          
-          <code><a href="henderson.milkfat.html">henderson.milkfat</a></code> 
+
+          <code><a href="henderson.milkfat.html">henderson.milkfat</a></code>
+
         </dt>
         <dd>Milk fat yields for a single cow</dd>
       </dl><dl><dt>
-          
-          <code><a href="hernandez.nitrogen.html">hernandez.nitrogen</a></code> 
+
+          <code><a href="hernandez.nitrogen.html">hernandez.nitrogen</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn with nitrogen fertilizer at 5 sites.</dd>
       </dl><dl><dt>
-          
-          <code><a href="hessling.argentina.html">hessling.argentina</a></code> 
+
+          <code><a href="hessling.argentina.html">hessling.argentina</a></code>
+
         </dt>
         <dd>Relation between wheat yield and weather in Argentina</dd>
       </dl><dl><dt>
-          
-          <code><a href="hildebrand.systems.html">hildebrand.systems</a></code> 
+
+          <code><a href="hildebrand.systems.html">hildebrand.systems</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize for four cropping systems</dd>
       </dl><dl><dt>
-          
-          <code><a href="holland.arthropods.html">holland.arthropods</a></code> 
+
+          <code><a href="holland.arthropods.html">holland.arthropods</a></code>
+
         </dt>
         <dd>Counts of arthropods in a grid-sampled wheat field</dd>
       </dl><dl><dt>
-          
-          <code><a href="holshouser.splitstrip.html">holshouser.splitstrip</a></code> 
+
+          <code><a href="holshouser.splitstrip.html">holshouser.splitstrip</a></code>
+
         </dt>
         <dd>Split-strip-plot of soybeans</dd>
       </dl><dl><dt>
-          
-          <code><a href="holtsmark.timothy.uniformity.html">holtsmark.timothy.uniformity</a></code> 
+
+          <code><a href="holtsmark.timothy.uniformity.html">holtsmark.timothy.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of timothy</dd>
       </dl><dl><dt>
-          
-          <code><a href="huehn.wheat.html">huehn.wheat</a></code> 
+
+          <code><a href="huehn.wheat.html">huehn.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat to illustrate stability statistics</dd>
       </dl><dl><dt>
-          
-          <code><a href="hughes.grapes.html">hughes.grapes</a></code> 
+
+          <code><a href="hughes.grapes.html">hughes.grapes</a></code>
+
         </dt>
         <dd>RCB experiment of grape, disease incidence</dd>
       </dl><dl><dt>
-          
-          <code><a href="hunter.corn.html">hunter.corn</a></code> 
+
+          <code><a href="hunter.corn.html">hunter.corn</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn with nitrogen fertilizer</dd>
       </dl><dl><dt>
-          
-          <code><a href="hutchinson.cotton.uniformity.html">hutchinson.cotton.uniformity</a></code> 
+
+          <code><a href="hutchinson.cotton.uniformity.html">hutchinson.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="igue.sugarcane.uniformity.html">igue.sugarcane.uniformity</a></code> 
+
+          <code><a href="igue.sugarcane.uniformity.html">igue.sugarcane.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial with sugarcane</dd>
       </dl><dl><dt>
-          
-          <code><a href="ilri.sheep.html">ilri.sheep</a></code> 
+
+          <code><a href="ilri.sheep.html">ilri.sheep</a></code>
+
         </dt>
         <dd>Birth weight and weaning weight of Dorper x Red Maasi lambs</dd>
       </dl><dl><dt>
-          
-          <code><a href="immer.sugarbeet.uniformity.html">immer.sugarbeet.uniformity</a></code> 
+
+          <code><a href="immer.sugarbeet.uniformity.html">immer.sugarbeet.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sugarbeets, measurements of yield, sugar, purity</dd>
       </dl><dl><dt>
-          
-          <code><a href="ivins.herbs.html">ivins.herbs</a></code> 
+
+          <code><a href="ivins.herbs.html">ivins.herbs</a></code>
+
         </dt>
         <dd>Percent ground cover of herbage species and nettles.</dd>
       </dl><dl><dt>
-          
-          <code><a href="iyer.wheat.uniformity.html">iyer.wheat.uniformity</a></code> 
+
+          <code><a href="iyer.wheat.uniformity.html">iyer.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of wheat in India</dd>
       </dl><dl><dt>
-          
-          <code><a href="jansen.apple.html">jansen.apple</a></code> 
+
+          <code><a href="jansen.apple.html">jansen.apple</a></code>
+
         </dt>
         <dd>Infestation of apple shoots by apple canker.</dd>
       </dl><dl><dt>
-          
-          <code><a href="jansen.carrot.html">jansen.carrot</a></code> 
+
+          <code><a href="jansen.carrot.html">jansen.carrot</a></code>
+
         </dt>
         <dd>Infestation of carrots by fly larvae</dd>
       </dl><dl><dt>
-          
-          <code><a href="jansen.strawberry.html">jansen.strawberry</a></code> 
+
+          <code><a href="jansen.strawberry.html">jansen.strawberry</a></code>
+
         </dt>
         <dd>Ordered disease ratings of strawberry crosses.</dd>
       </dl><dl><dt>
-          
-          <code><a href="jayaraman.bamboo.html">jayaraman.bamboo</a></code> 
+
+          <code><a href="jayaraman.bamboo.html">jayaraman.bamboo</a></code>
+
         </dt>
         <dd>Bamboo progeny trial</dd>
       </dl><dl><dt>
-          
-          <code><a href="jegorow.oats.uniformity.html">jegorow.oats.uniformity</a></code> 
+
+          <code><a href="jegorow.oats.uniformity.html">jegorow.oats.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of oats in Russia</dd>
       </dl><dl><dt>
-          
-          <code><a href="jenkyn.mildew.html">jenkyn.mildew</a></code> 
+
+          <code><a href="jenkyn.mildew.html">jenkyn.mildew</a></code>
+
         </dt>
         <dd>Yields from treatment for mildew control</dd>
       </dl><dl><dt>
-          
-          <code><a href="john.alpha.html">john.alpha</a></code> 
+
+          <code><a href="john.alpha.html">john.alpha</a></code>
+
         </dt>
         <dd>Alpha lattice design of spring oats</dd>
       </dl><dl><dt>
-          
-          <code><a href="johnson.blight.html">johnson.blight</a></code> 
+
+          <code><a href="johnson.blight.html">johnson.blight</a></code>
+
         </dt>
         <dd>Potato blight due to weather in Prosser, Washington</dd>
       </dl><dl><dt>
-          
-          <code><a href="johnson.douglasfir.html">johnson.douglasfir</a></code> 
+
+          <code><a href="johnson.douglasfir.html">johnson.douglasfir</a></code>
+
         </dt>
         <dd>A study of small-plots of old-growth Douglas Fir in Oregon.</dd>
       </dl><dl><dt>
-          
-          <code><a href="jones.corn.uniformity.html">jones.corn.uniformity</a></code> 
+
+          <code><a href="jones.corn.uniformity.html">jones.corn.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of corn.</dd>
       </dl><dl><dt>
-          
-          <code><a href="jurowski.wheat.uniformity.html">jurowski.wheat.uniformity</a></code> 
+
+          <code><a href="jurowski.wheat.uniformity.html">jurowski.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat in Russia</dd>
       </dl><dl><dt>
-          
-          <code><a href="kadam.millet.uniformity.html">kadam.millet.uniformity</a></code> 
+
+          <code><a href="kadam.millet.uniformity.html">kadam.millet.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of millet</dd>
       </dl><dl><dt>
-          
-          <code><a href="kalamkar.potato.uniformity.html">kalamkar.potato.uniformity</a></code> 
+
+          <code><a href="kalamkar.potato.uniformity.html">kalamkar.potato.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of potatoes</dd>
       </dl><dl><dt>
-          
-          <code><a href="kalamkar.wheat.uniformity.html">kalamkar.wheat.uniformity</a></code> 
+
+          <code><a href="kalamkar.wheat.uniformity.html">kalamkar.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="kang.maize.html">kang.maize</a></code> 
+
+          <code><a href="kang.maize.html">kang.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize in Louisianna at 4 locs in 3 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="kang.peanut.html">kang.peanut</a></code> 
+
+          <code><a href="kang.peanut.html">kang.peanut</a></code>
+
         </dt>
         <dd>Multi-environment trial of peanuts for 10 genotypes in 15 environments</dd>
       </dl><dl><dt>
-          
-          <code><a href="karcher.turfgrass.html">karcher.turfgrass</a></code> 
+
+          <code><a href="karcher.turfgrass.html">karcher.turfgrass</a></code>
+
         </dt>
         <dd>Turfgrass ratings for different treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="kayad.alfalfa.html">kayad.alfalfa</a></code> 
+
+          <code><a href="kayad.alfalfa.html">kayad.alfalfa</a></code>
+
         </dt>
         <dd>Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia.</dd>
       </dl><dl><dt>
-          
-          <code><a href="keen.potatodamage.html">keen.potatodamage</a></code> 
+
+          <code><a href="keen.potatodamage.html">keen.potatodamage</a></code>
+
         </dt>
         <dd>Damage to potato tubers from lifting rods.</dd>
       </dl><dl><dt>
-          
-          <code><a href="kempton.barley.uniformity.html">kempton.barley.uniformity</a></code> 
+
+          <code><a href="kempton.barley.uniformity.html">kempton.barley.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of barley</dd>
       </dl><dl><dt>
-          
-          <code><a href="kempton.competition.html">kempton.competition</a></code> 
+
+          <code><a href="kempton.competition.html">kempton.competition</a></code>
+
         </dt>
         <dd>Sugar beet trial with competition effects</dd>
       </dl><dl><dt>
-          
-          <code><a href="kempton.rowcol.html">kempton.rowcol</a></code> 
+
+          <code><a href="kempton.rowcol.html">kempton.rowcol</a></code>
+
         </dt>
         <dd>Row-column experiment of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="kempton.slatehall.html">kempton.slatehall</a></code> 
+
+          <code><a href="kempton.slatehall.html">kempton.slatehall</a></code>
+
         </dt>
         <dd>Slate Hall Farm 1976 spring wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="kenward.cattle.html">kenward.cattle</a></code> 
+
+          <code><a href="kenward.cattle.html">kenward.cattle</a></code>
+
         </dt>
         <dd>Repeated measurement of weights of calves with two treatments.</dd>
       </dl><dl><dt>
-          
-          <code><a href="kerr.sugarcane.uniformity.html">kerr.sugarcane.uniformity</a></code> 
+
+          <code><a href="kerr.sugarcane.uniformity.html">kerr.sugarcane.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of sugarcane, 4 fields</dd>
       </dl><dl><dt>
-          
-          <code><a href="khan.brassica.uniformity.html">khan.brassica.uniformity</a></code> 
+
+          <code><a href="khan.brassica.uniformity.html">khan.brassica.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of brassica.</dd>
       </dl><dl><dt>
-          
-          <code><a href="khin.rice.uniformity.html">khin.rice.uniformity</a></code> 
+
+          <code><a href="khin.rice.uniformity.html">khin.rice.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="kiesselbach.oats.uniformity.html">kiesselbach.oats.uniformity</a></code> 
+
+          <code><a href="kiesselbach.oats.uniformity.html">kiesselbach.oats.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of oats</dd>
       </dl><dl><dt>
-          
-          <code><a href="kirk.potato.html">kirk.potato</a></code> 
+
+          <code><a href="kirk.potato.html">kirk.potato</a></code>
+
         </dt>
         <dd>Variety trial of potatoes, highly replicated</dd>
       </dl><dl><dt>
-          
-          <code><a href="kling.augmented.html">kling.augmented</a></code> 
+
+          <code><a href="kling.augmented.html">kling.augmented</a></code>
+
         </dt>
         <dd>Augmented design of meadowfoam</dd>
       </dl><dl><dt>
-          
-          <code><a href="kreusler.maize.html">kreusler.maize</a></code> 
+
+          <code><a href="kreusler.maize.html">kreusler.maize</a></code>
+
         </dt>
         <dd>Growth of maize plants in Germany during 1875-1878</dd>
       </dl><dl><dt>
-          
-          <code><a href="kristensen.barley.uniformity.html">kristensen.barley.uniformity</a></code> 
+
+          <code><a href="kristensen.barley.uniformity.html">kristensen.barley.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of barley</dd>
       </dl><dl><dt>
-          
-          <code><a href="kulkarni.sorghum.uniformity.html">kulkarni.sorghum.uniformity</a></code> 
+
+          <code><a href="kulkarni.sorghum.uniformity.html">kulkarni.sorghum.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sorghum</dd>
       </dl><dl><dt>
-          
-          <code><a href="lambert.soiltemp.html">lambert.soiltemp</a></code> 
+
+          <code><a href="lambert.soiltemp.html">lambert.soiltemp</a></code>
+
         </dt>
         <dd>Average monthly soil temperature near Zurich</dd>
       </dl><dl><dt>
-          
-          <code><a href="lander.multi.uniformity.html">lander.multi.uniformity</a></code> 
+
+          <code><a href="lander.multi.uniformity.html">lander.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of wheat and chari, 4 years on the same land.</dd>
       </dl><dl><dt>
-          
-          <code><a href="lasrosas.corn.html">lasrosas.corn</a></code> 
+
+          <code><a href="lasrosas.corn.html">lasrosas.corn</a></code>
+
         </dt>
         <dd>Yield monitor data for a corn field in Argentina with variable nitrogen.</dd>
       </dl><dl><dt>
-          
-          <code><a href="lavoranti.eucalyptus.html">lavoranti.eucalyptus</a></code> 
+
+          <code><a href="lavoranti.eucalyptus.html">lavoranti.eucalyptus</a></code>
+
         </dt>
         <dd>Height of Eucalyptus trees in southern Brazil</dd>
       </dl><dl><dt>
-          
-          <code><a href="laycock.tea.uniformity.html">laycock.tea.uniformity</a></code> 
+
+          <code><a href="laycock.tea.uniformity.html">laycock.tea.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of tea</dd>
       </dl><dl><dt>
-          
-          <code><a href="lee.potatoblight.html">lee.potatoblight</a></code> 
+
+          <code><a href="lee.potatoblight.html">lee.potatoblight</a></code>
+
         </dt>
         <dd>Repeated measurements of resistance to potato blight</dd>
       </dl><dl><dt>
-          
-          <code><a href="lehmann.millet.uniformity.html">lehmann.millet.uniformity</a></code> 
+
+          <code><a href="lehmann.millet.uniformity.html">lehmann.millet.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of millet in India</dd>
       </dl><dl><dt>
-          
-          <code><a href="lehner.soybeanmold.html">lehner.soybeanmold</a></code> 
+
+          <code><a href="lehner.soybeanmold.html">lehner.soybeanmold</a></code>
+
         </dt>
         <dd>Yield, white mold, and sclerotia for soybeans in Brazil</dd>
       </dl><dl><dt>
-          
-          <code><a href="lessman.sorghum.uniformity.html">lessman.sorghum.uniformity</a></code> 
+
+          <code><a href="lessman.sorghum.uniformity.html">lessman.sorghum.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sorghum</dd>
       </dl><dl><dt>
-          
-          <code><a href="li.millet.uniformity.html">li.millet.uniformity</a></code> 
+
+          <code><a href="li.millet.uniformity.html">li.millet.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of millet</dd>
       </dl><dl><dt>
-          
-          <code><a href="libs.html">libs()</a></code> 
+
+          <code><a href="libs.html">libs()</a></code>
+
         </dt>
         <dd>Load multiple packages and install if needed</dd>
       </dl><dl><dt>
-          
-          <code><a href="lillemo.wheat.html">lillemo.wheat</a></code> 
+
+          <code><a href="lillemo.wheat.html">lillemo.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat susceptibile to powdery mildew</dd>
       </dl><dl><dt>
-          
-          <code><a href="lin.superiority.html">lin.superiority</a></code> 
+
+          <code><a href="lin.superiority.html">lin.superiority</a></code>
+
         </dt>
         <dd>Multi-environment trial of 33 barley genotypes in 12 locations</dd>
       </dl><dl><dt>
-          
-          <code><a href="lin.unbalanced.html">lin.unbalanced</a></code> 
+
+          <code><a href="lin.unbalanced.html">lin.unbalanced</a></code>
+
         </dt>
         <dd>Multi-environment trial of 33 barley genotypes in 18 locations</dd>
       </dl><dl><dt>
-          
-          <code><a href="linder.wheat.html">linder.wheat</a></code> 
+
+          <code><a href="linder.wheat.html">linder.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat in Switzerland</dd>
       </dl><dl><dt>
-          
-          <code><a href="little.splitblock.html">little.splitblock</a></code> 
+
+          <code><a href="little.splitblock.html">little.splitblock</a></code>
+
         </dt>
         <dd>Split-block experiment of sugar beets</dd>
       </dl><dl><dt>
-          
-          <code><a href="loesell.bean.uniformity.html">loesell.bean.uniformity</a></code> 
+
+          <code><a href="loesell.bean.uniformity.html">loesell.bean.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of white pea beans</dd>
       </dl><dl><dt>
-          
-          <code><a href="lonnquist.maize.html">lonnquist.maize</a></code> 
+
+          <code><a href="lonnquist.maize.html">lonnquist.maize</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize, half diallel</dd>
       </dl><dl><dt>
-          
-          <code><a href="lord.rice.uniformity.html">lord.rice.uniformity</a></code> 
+
+          <code><a href="lord.rice.uniformity.html">lord.rice.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="love.cotton.uniformity.html">love.cotton.uniformity</a></code> 
+
+          <code><a href="love.cotton.uniformity.html">love.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="lu.stability.html">lu.stability</a></code> 
+
+          <code><a href="lu.stability.html">lu.stability</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize, to illustrate stability statistics</dd>
       </dl><dl><dt>
-          
-          <code><a href="lucas.switchback.html">lucas.switchback</a></code> 
+
+          <code><a href="lucas.switchback.html">lucas.switchback</a></code>
+
         </dt>
         <dd>Switchback experiment on dairy cattle, milk yield for 3 treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="lyon.potato.uniformity.html">lyon.potato.uniformity</a></code> 
+
+          <code><a href="lyon.potato.uniformity.html">lyon.potato.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of potatoes</dd>
       </dl><dl><dt>
-          
-          <code><a href="lyons.wheat.html">lyons.wheat</a></code> 
+
+          <code><a href="lyons.wheat.html">lyons.wheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of winter wheat at 12 sites in 4 years.</dd>
       </dl><dl><dt>
-          
-          <code><a href="magistad.pineapple.uniformity.html">magistad.pineapple.uniformity</a></code> 
+
+          <code><a href="magistad.pineapple.uniformity.html">magistad.pineapple.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of pineapple</dd>
       </dl><dl><dt>
-          
-          <code><a href="masood.rice.uniformity.html">masood.rice.uniformity</a></code> 
+
+          <code><a href="masood.rice.uniformity.html">masood.rice.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="mcclelland.corn.uniformity.html">mcclelland.corn.uniformity</a></code> 
+
+          <code><a href="mcclelland.corn.uniformity.html">mcclelland.corn.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of corn</dd>
       </dl><dl><dt>
-          
-          <code><a href="mcconway.turnip.html">mcconway.turnip</a></code> 
+
+          <code><a href="mcconway.turnip.html">mcconway.turnip</a></code>
+
         </dt>
         <dd>RCB experiment of turnips</dd>
       </dl><dl><dt>
-          
-          <code><a href="mckinstry.cotton.uniformity.html">mckinstry.cotton.uniformity</a></code> 
+
+          <code><a href="mckinstry.cotton.uniformity.html">mckinstry.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton in South Rhodesia</dd>
       </dl><dl><dt>
-          
-          <code><a href="mcleod.barley.html">mcleod.barley</a></code> 
+
+          <code><a href="mcleod.barley.html">mcleod.barley</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley in South Canterbury with yield and yield components</dd>
       </dl><dl><dt>
-          
-          <code><a href="mead.cauliflower.html">mead.cauliflower</a></code> 
+
+          <code><a href="mead.cauliflower.html">mead.cauliflower</a></code>
+
         </dt>
         <dd>Leaves for cauliflower plants at different times</dd>
       </dl><dl><dt>
-          
-          <code><a href="mead.cowpea.maize.html">mead.cowpea.maize</a></code> 
+
+          <code><a href="mead.cowpea.maize.html">mead.cowpea.maize</a></code>
+
         </dt>
         <dd>Intercropping experiment of maize/cowpea</dd>
       </dl><dl><dt>
-          
-          <code><a href="mead.germination.html">mead.germination</a></code> 
+
+          <code><a href="mead.germination.html">mead.germination</a></code>
+
         </dt>
         <dd>Seed germination with different temperatures/concentrations</dd>
       </dl><dl><dt>
-          
-          <code><a href="mead.lamb.html">mead.lamb</a></code> 
+
+          <code><a href="mead.lamb.html">mead.lamb</a></code>
+
         </dt>
         <dd>Number of lambs born to 3 breeds on 3 farms</dd>
       </dl><dl><dt>
-          
-          <code><a href="mead.strawberry.html">mead.strawberry</a></code> 
+
+          <code><a href="mead.strawberry.html">mead.strawberry</a></code>
+
         </dt>
         <dd>RCB experiment of strawberry</dd>
       </dl><dl><dt>
-          
-          <code><a href="mead.turnip.html">mead.turnip</a></code> 
+
+          <code><a href="mead.turnip.html">mead.turnip</a></code>
+
         </dt>
         <dd>Density/spacing experiment for turnips in 3 blocks.</dd>
       </dl><dl><dt>
-          
-          <code><a href="mercer.mangold.uniformity.html">mercer.mangold.uniformity</a></code> 
+
+          <code><a href="mercer.mangold.uniformity.html">mercer.mangold.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of mangolds</dd>
       </dl><dl><dt>
-          
-          <code><a href="mercer.wheat.uniformity.html">mercer.wheat.uniformity</a></code> 
+
+          <code><a href="mercer.wheat.uniformity.html">mercer.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="miguez.biomass.html">miguez.biomass</a></code> 
+
+          <code><a href="miguez.biomass.html">miguez.biomass</a></code>
+
         </dt>
         <dd>Biomass of 3 crops in Greece</dd>
       </dl><dl><dt>
-          
-          <code><a href="minnesota.barley.weather.html">minnesota.barley.weather</a></code> 
+
+          <code><a href="minnesota.barley.weather.html">minnesota.barley.weather</a></code>
+
         </dt>
         <dd>Monthly weather at 6 sites in Minnesota 1927-1936.</dd>
       </dl><dl><dt>
-          
-          <code><a href="minnesota.barley.yield.html">minnesota.barley.yield</a></code> 
+
+          <code><a href="minnesota.barley.yield.html">minnesota.barley.yield</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936.</dd>
       </dl><dl><dt>
-          
-          <code><a href="montgomery.wheat.uniformity.html">montgomery.wheat.uniformity</a></code> 
+
+          <code><a href="montgomery.wheat.uniformity.html">montgomery.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat, 2 years on the same land</dd>
       </dl><dl><dt>
-          
-          <code><a href="moore.uniformity.html">moore.bushbean.uniformity</a></code> <code><a href="moore.uniformity.html">moore.carrot.uniformity</a></code> <code><a href="moore.uniformity.html">moore.polebean.uniformity</a></code> <code><a href="moore.uniformity.html">moore.sweetcorn.uniformity</a></code> <code><a href="moore.uniformity.html">moore.springcauliflower.uniformity</a></code> <code><a href="moore.uniformity.html">moore.fallcauliflower.uniformity</a></code> 
+
+          <code><a href="moore.uniformity.html">moore.bushbean.uniformity</a></code> <code><a href="moore.uniformity.html">moore.carrot.uniformity</a></code> <code><a href="moore.uniformity.html">moore.polebean.uniformity</a></code> <code><a href="moore.uniformity.html">moore.sweetcorn.uniformity</a></code> <code><a href="moore.uniformity.html">moore.springcauliflower.uniformity</a></code> <code><a href="moore.uniformity.html">moore.fallcauliflower.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower</dd>
       </dl><dl><dt>
-          
-          <code><a href="nagai.strawberry.uniformity.html">nagai.strawberry.uniformity</a></code> 
+
+          <code><a href="nagai.strawberry.uniformity.html">nagai.strawberry.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of strawberry</dd>
       </dl><dl><dt>
-          
-          <code><a href="nair.turmeric.uniformity.html">nair.turmeric.uniformity</a></code> 
+
+          <code><a href="nair.turmeric.uniformity.html">nair.turmeric.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of turmeric.</dd>
       </dl><dl><dt>
-          
-          <code><a href="narain.sorghum.uniformity.html">narain.sorghum.uniformity</a></code> 
+
+          <code><a href="narain.sorghum.uniformity.html">narain.sorghum.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sorghum</dd>
       </dl><dl><dt>
-          
-          <code><a href="nass.corn.html">nass.barley</a></code> <code><a href="nass.corn.html">nass.corn</a></code> <code><a href="nass.corn.html">nass.cotton</a></code> <code><a href="nass.corn.html">nass.hay</a></code> <code><a href="nass.corn.html">nass.sorghum</a></code> <code><a href="nass.corn.html">nass.wheat</a></code> <code><a href="nass.corn.html">nass.rice</a></code> <code><a href="nass.corn.html">nass.soybean</a></code> 
+
+          <code><a href="nass.corn.html">nass.barley</a></code> <code><a href="nass.corn.html">nass.corn</a></code> <code><a href="nass.corn.html">nass.cotton</a></code> <code><a href="nass.corn.html">nass.hay</a></code> <code><a href="nass.corn.html">nass.sorghum</a></code> <code><a href="nass.corn.html">nass.wheat</a></code> <code><a href="nass.corn.html">nass.rice</a></code> <code><a href="nass.corn.html">nass.soybean</a></code>
+
         </dt>
         <dd>U.S. historical crop yields by state</dd>
       </dl><dl><dt>
-          
-          <code><a href="nebraska.farmincome.html">nebraska.farmincome</a></code> 
+
+          <code><a href="nebraska.farmincome.html">nebraska.farmincome</a></code>
+
         </dt>
         <dd>Nebraska farm income in 2007 by county</dd>
       </dl><dl><dt>
-          
-          <code><a href="nonnecke.peas.uniformity.html">nonnecke.peas.uniformity</a></code> 
+
+          <code><a href="nonnecke.peas.uniformity.html">nonnecke.peas.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of canning peas</dd>
       </dl><dl><dt>
-          
-          <code><a href="nonnecke.sweetcorn.uniformity.html">nonnecke.sweetcorn.uniformity</a></code> 
+
+          <code><a href="nonnecke.sweetcorn.uniformity.html">nonnecke.sweetcorn.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sweet corn</dd>
       </dl><dl><dt>
-          
-          <code><a href="obsi.potato.uniformity.html">obsi.potato.uniformity</a></code> 
+
+          <code><a href="obsi.potato.uniformity.html">obsi.potato.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of potato in Africa 2001</dd>
       </dl><dl><dt>
-          
-          <code><a href="odland.soybean.uniformity.html">odland.soybean.uniformity</a></code> <code><a href="odland.soybean.uniformity.html">odland.soyhay.uniformity</a></code> 
+
+          <code><a href="odland.soybean.uniformity.html">odland.soybean.uniformity</a></code> <code><a href="odland.soybean.uniformity.html">odland.soyhay.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of soy hay and soybeans</dd>
       </dl><dl><dt>
-          
-          <code><a href="omer.sorghum.html">omer.sorghum</a></code> 
+
+          <code><a href="omer.sorghum.html">omer.sorghum</a></code>
+
         </dt>
         <dd>Multi-environment trial of sorghum, 6 environments</dd>
       </dl><dl><dt>
-          
-          <code><a href="onofri.winterwheat.html">onofri.winterwheat</a></code> 
+
+          <code><a href="onofri.winterwheat.html">onofri.winterwheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of winter wheat, 7 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="ortiz.tomato.html">ortiz.tomato.covs</a></code> <code><a href="ortiz.tomato.html">ortiz.tomato.yield</a></code> 
+
+          <code><a href="ortiz.tomato.html">ortiz.tomato.covs</a></code> <code><a href="ortiz.tomato.html">ortiz.tomato.yield</a></code>
+
         </dt>
         <dd>Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates</dd>
       </dl><dl><dt>
-          
-          <code><a href="pacheco.soybean.html">pacheco.soybean</a></code> 
+
+          <code><a href="pacheco.soybean.html">pacheco.soybean</a></code>
+
         </dt>
         <dd>Multi-environment trial of soybean in Brazil.</dd>
       </dl><dl><dt>
-          
-          <code><a href="paez.coffee.uniformity.html">paez.coffee.uniformity</a></code> 
+
+          <code><a href="paez.coffee.uniformity.html">paez.coffee.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of coffee</dd>
       </dl><dl><dt>
-          
-          <code><a href="panse.cotton.uniformity.html">panse.cotton.uniformity</a></code> 
+
+          <code><a href="panse.cotton.uniformity.html">panse.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="parker.orange.uniformity.html">parker.orange.uniformity</a></code> 
+
+          <code><a href="parker.orange.uniformity.html">parker.orange.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of oranges</dd>
       </dl><dl><dt>
-          
-          <code><a href="patterson.switchback.html">patterson.switchback</a></code> 
+
+          <code><a href="patterson.switchback.html">patterson.switchback</a></code>
+
         </dt>
         <dd>Switchback experiment on dairy cattle, milk yield for 4 treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="payne.wheat.html">payne.wheat</a></code> 
+
+          <code><a href="payne.wheat.html">payne.wheat</a></code>
+
         </dt>
         <dd>Long term rotation experiment at Rothamsted</dd>
       </dl><dl><dt>
-          
-          <code><a href="pearce.apple.html">pearce.apple</a></code> 
+
+          <code><a href="pearce.apple.html">pearce.apple</a></code>
+
         </dt>
         <dd>Apple tree yields for 6 treatments with covariate</dd>
       </dl><dl><dt>
-          
-          <code><a href="pearl.kernels.html">pearl.kernels</a></code> 
+
+          <code><a href="pearl.kernels.html">pearl.kernels</a></code>
+
         </dt>
         <dd>Counts of yellow/white and sweet/starchy maize kernels by 15 observers</dd>
       </dl><dl><dt>
-          
-          <code><a href="pederson.lettuce.repeated.html">pederson.lettuce.repeated</a></code> 
+
+          <code><a href="pederson.lettuce.repeated.html">pederson.lettuce.repeated</a></code>
+
         </dt>
         <dd>Repeated measurements of lettuce growth</dd>
       </dl><dl><dt>
-          
-          <code><a href="perry.springwheat.html">perry.springwheat</a></code> 
+
+          <code><a href="perry.springwheat.html">perry.springwheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat cultivars introduced 1860-1982.</dd>
       </dl><dl><dt>
-          
-          <code><a href="petersen.sorghum.cowpea.html">petersen.sorghum.cowpea</a></code> 
+
+          <code><a href="petersen.sorghum.cowpea.html">petersen.sorghum.cowpea</a></code>
+
         </dt>
         <dd>Intercropping experiment of sorghum/cowpea</dd>
       </dl><dl><dt>
-          
-          <code><a href="piepho.barley.uniformity.html">piepho.barley.uniformity</a></code> 
+
+          <code><a href="piepho.barley.uniformity.html">piepho.barley.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of barley</dd>
       </dl><dl><dt>
-          
-          <code><a href="piepho.cocksfoot.html">piepho.cocksfoot</a></code> 
+
+          <code><a href="piepho.cocksfoot.html">piepho.cocksfoot</a></code>
+
         </dt>
         <dd>Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="polson.safflower.uniformity.html">polson.safflower.uniformity</a></code> 
+
+          <code><a href="polson.safflower.uniformity.html">polson.safflower.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of safflower</dd>
       </dl><dl><dt>
-          
-          <code><a href="ratkowsky.onions.html">ratkowsky.onions</a></code> 
+
+          <code><a href="ratkowsky.onions.html">ratkowsky.onions</a></code>
+
         </dt>
         <dd>Onion yields for different densities at two locations</dd>
       </dl><dl><dt>
-          
-          <code><a href="reid.grasses.html">reid.grasses</a></code> 
+
+          <code><a href="reid.grasses.html">reid.grasses</a></code>
+
         </dt>
         <dd>Yields of four grasses for a wide range of nitrogen fertilizer</dd>
       </dl><dl><dt>
-          
-          <code><a href="riddle.wheat.html">riddle.wheat</a></code> 
+
+          <code><a href="riddle.wheat.html">riddle.wheat</a></code>
+
         </dt>
         <dd>Modified Latin Square experiments of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="ridout.appleshoots.html">ridout.appleshoots</a></code> 
+
+          <code><a href="ridout.appleshoots.html">ridout.appleshoots</a></code>
+
         </dt>
         <dd>Root counts for propagated columnar apple shoots.</dd>
       </dl><dl><dt>
-          
-          <code><a href="robinson.peanut.uniformity.html">robinson.peanut.uniformity</a></code> 
+
+          <code><a href="robinson.peanut.uniformity.html">robinson.peanut.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of peanuts</dd>
       </dl><dl><dt>
-          
-          <code><a href="roemer.sugarbeet.uniformity.html">roemer.sugarbeet.uniformity</a></code> 
+
+          <code><a href="roemer.sugarbeet.uniformity.html">roemer.sugarbeet.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sugar beets</dd>
       </dl><dl><dt>
-          
-          <code><a href="rothamsted.brussels.html">rothamsted.brussels</a></code> 
+
+          <code><a href="rothamsted.brussels.html">rothamsted.brussels</a></code>
+
         </dt>
         <dd>RCB experiment of brussels sprouts, 9 fertilizer treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="rothamsted.oats.html">rothamsted.oats</a></code> 
+
+          <code><a href="rothamsted.oats.html">rothamsted.oats</a></code>
+
         </dt>
         <dd>RCB experiment of oats, straw and grain, 9 fertilizer treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="ryder.groundnut.html">ryder.groundnut</a></code> 
+
+          <code><a href="ryder.groundnut.html">ryder.groundnut</a></code>
+
         </dt>
         <dd>RCB experiment of groundut, wet and dry yields</dd>
       </dl><dl><dt>
-          
-          <code><a href="salmon.bunt.html">salmon.bunt</a></code> 
+
+          <code><a href="salmon.bunt.html">salmon.bunt</a></code>
+
         </dt>
         <dd>Fungus infection in varieties of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="saunders.maize.uniformity.html">saunders.maize.uniformity</a></code> 
+
+          <code><a href="saunders.maize.uniformity.html">saunders.maize.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of maize in South Africa</dd>
       </dl><dl><dt>
-          
-          <code><a href="sawyer.multi.uniformity.html">sawyer.multi.uniformity</a></code> 
+
+          <code><a href="sawyer.multi.uniformity.html">sawyer.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of wheat, swedes, oats, 3 years on the same land</dd>
       </dl><dl><dt>
-          
-          <code><a href="sayer.sugarcane.uniformity.html">sayer.sugarcane.uniformity</a></code> 
+
+          <code><a href="sayer.sugarcane.uniformity.html">sayer.sugarcane.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sugarcane in India, 1932, 1933 &amp; 1934.</dd>
       </dl><dl><dt>
-          
-          <code><a href="senshu.rice.html">senshu.rice</a></code> 
+
+          <code><a href="senshu.rice.html">senshu.rice</a></code>
+
         </dt>
         <dd>Multi-environment trial of rice, with solar radiation and temperature</dd>
       </dl><dl><dt>
-          
-          <code><a href="shafi.tomato.uniformity.html">shafi.tomato.uniformity</a></code> 
+
+          <code><a href="shafi.tomato.uniformity.html">shafi.tomato.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of tomato</dd>
       </dl><dl><dt>
-          
-          <code><a href="shafii.rapeseed.html">shafii.rapeseed</a></code> 
+
+          <code><a href="shafii.rapeseed.html">shafii.rapeseed</a></code>
+
         </dt>
         <dd>Multi-environment trial of rapeseed in U.S.</dd>
       </dl><dl><dt>
-          
-          <code><a href="sharma.met.html">sharma.met</a></code> 
+
+          <code><a href="sharma.met.html">sharma.met</a></code>
+
         </dt>
         <dd>Multi-environment trial</dd>
       </dl><dl><dt>
-          
-          <code><a href="shaw.oats.html">shaw.oats</a></code> 
+
+          <code><a href="shaw.oats.html">shaw.oats</a></code>
+
         </dt>
         <dd>Multi-environment trial of oats in India</dd>
       </dl><dl><dt>
-          
-          <code><a href="siao.cotton.uniformity.html">siao.cotton.uniformity</a></code> 
+
+          <code><a href="siao.cotton.uniformity.html">siao.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of cotton in China</dd>
       </dl><dl><dt>
-          
-          <code><a href="silva.cotton.html">silva.cotton</a></code> 
+
+          <code><a href="silva.cotton.html">silva.cotton</a></code>
+
         </dt>
         <dd>Number of cotton bolls for different levels of defoliation.</dd>
       </dl><dl><dt>
-          
-          <code><a href="sinclair.clover.html">sinclair.clover</a></code> 
+
+          <code><a href="sinclair.clover.html">sinclair.clover</a></code>
+
         </dt>
         <dd>Clover yields in a factorial fertilizer experiment</dd>
       </dl><dl><dt>
-          
-          <code><a href="smith.beans.uniformity.html">smith.beans.uniformity</a></code> 
+
+          <code><a href="smith.beans.uniformity.html">smith.beans.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of beans, 2 species in 2 years</dd>
       </dl><dl><dt>
-          
-          <code><a href="smith.corn.uniformity.html">smith.corn.uniformity</a></code> 
+
+          <code><a href="smith.corn.uniformity.html">smith.corn.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of corn, 3 years on same ground</dd>
       </dl><dl><dt>
-          
-          <code><a href="smith.wheat.uniformity.html">smith.wheat.uniformity</a></code> 
+
+          <code><a href="smith.wheat.uniformity.html">smith.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="snedecor.asparagus.html">snedecor.asparagus</a></code> 
+
+          <code><a href="snedecor.asparagus.html">snedecor.asparagus</a></code>
+
         </dt>
         <dd>Asparagus yields for different cutting treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="snijders.fusarium.html">snijders.fusarium</a></code> 
+
+          <code><a href="snijders.fusarium.html">snijders.fusarium</a></code>
+
         </dt>
         <dd>Fusarium infection in wheat varieties</dd>
       </dl><dl><dt>
-          
-          <code><a href="stephens.sorghum.uniformity.html">stephens.sorghum.uniformity</a></code> 
+
+          <code><a href="stephens.sorghum.uniformity.html">stephens.sorghum.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sorghum silage</dd>
       </dl><dl><dt>
-          
-          <code><a href="steptoe.morex.pheno.html">steptoe.morex.pheno</a></code> 
+
+          <code><a href="steptoe.morex.pheno.html">steptoe.morex.pheno</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex</dd>
       </dl><dl><dt>
-          
-          <code><a href="stickler.sorghum.uniformity.html">stickler.sorghum.uniformity</a></code> 
+
+          <code><a href="stickler.sorghum.uniformity.html">stickler.sorghum.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of sorghum</dd>
       </dl><dl><dt>
-          
-          <code><a href="stirret.borers.html">stirret.borers</a></code> 
+
+          <code><a href="stirret.borers.html">stirret.borers</a></code>
+
         </dt>
         <dd>Corn borer control by application of fungal spores.</dd>
       </dl><dl><dt>
-          
-          <code><a href="streibig.competition.html">streibig.competition</a></code> 
+
+          <code><a href="streibig.competition.html">streibig.competition</a></code>
+
         </dt>
         <dd>Competition experiment between barley and sinapis.</dd>
       </dl><dl><dt>
-          
-          <code><a href="strickland.apple.uniformity.html">strickland.apple.uniformity</a></code> 
+
+          <code><a href="strickland.apple.uniformity.html">strickland.apple.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial in apple</dd>
       </dl><dl><dt>
-          
-          <code><a href="strickland.grape.uniformity.html">strickland.grape.uniformity</a></code> 
+
+          <code><a href="strickland.grape.uniformity.html">strickland.grape.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of grape</dd>
       </dl><dl><dt>
-          
-          <code><a href="strickland.peach.uniformity.html">strickland.peach.uniformity</a></code> 
+
+          <code><a href="strickland.peach.uniformity.html">strickland.peach.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of peach</dd>
       </dl><dl><dt>
-          
-          <code><a href="strickland.tomato.uniformity.html">strickland.tomato.uniformity</a></code> 
+
+          <code><a href="strickland.tomato.uniformity.html">strickland.tomato.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of tomato</dd>
       </dl><dl><dt>
-          
-          <code><a href="stroup.nin.html">stroup.nin</a></code> 
+
+          <code><a href="stroup.nin.html">stroup.nin</a></code>
+
         </dt>
         <dd>RCB experiment of wheat at the Nebraska Intrastate Nursery</dd>
       </dl><dl><dt>
-          
-          <code><a href="stroup.splitplot.html">stroup.splitplot</a></code> 
+
+          <code><a href="stroup.splitplot.html">stroup.splitplot</a></code>
+
         </dt>
         <dd>Split-plot experiment of simulated data</dd>
       </dl><dl><dt>
-          
-          <code><a href="student.barley.html">student.barley</a></code> 
+
+          <code><a href="student.barley.html">student.barley</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley</dd>
       </dl><dl><dt>
-          
-          <code><a href="summerby.multi.uniformity.html">summerby.multi.uniformity</a></code> 
+
+          <code><a href="summerby.multi.uniformity.html">summerby.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of maize, oat, alfalfa, mangolds</dd>
       </dl><dl><dt>
-          
-          <code><a href="tai.potato.html">tai.potato</a></code> 
+
+          <code><a href="tai.potato.html">tai.potato</a></code>
+
         </dt>
         <dd>Multi-environment trial of potato</dd>
       </dl><dl><dt>
-          
-          <code><a href="talbot.potato.html">talbot.potato.traits</a></code> <code><a href="talbot.potato.html">talbot.potato.yield</a></code> 
+
+          <code><a href="talbot.potato.html">talbot.potato.traits</a></code> <code><a href="talbot.potato.html">talbot.potato.yield</a></code>
+
         </dt>
         <dd>Multi-environment trial of potato in UK, yields and trait scores at 12 locations</dd>
       </dl><dl><dt>
-          
-          <code><a href="tesfaye.millet.html">tesfaye.millet</a></code> 
+
+          <code><a href="tesfaye.millet.html">tesfaye.millet</a></code>
+
         </dt>
         <dd>Multi-environment trial of millet</dd>
       </dl><dl><dt>
-          
-          <code><a href="theobald.barley.html">theobald.barley</a></code> 
+
+          <code><a href="theobald.barley.html">theobald.barley</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley, multiple years &amp; fertilizer levels</dd>
       </dl><dl><dt>
-          
-          <code><a href="theobald.covariate.html">theobald.covariate</a></code> 
+
+          <code><a href="theobald.covariate.html">theobald.covariate</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn silage, Year * Loc * Variety with covariate</dd>
       </dl><dl><dt>
-          
-          <code><a href="thompson.cornsoy.html">thompson.cornsoy</a></code> 
+
+          <code><a href="thompson.cornsoy.html">thompson.cornsoy</a></code>
+
         </dt>
         <dd>Multi-environment trial of corn &amp; soybean, 1930-1962, with temperature and precipitation</dd>
       </dl><dl><dt>
-          
-          <code><a href="tulaikow.wheat.uniformity.html">tulaikow.wheat.uniformity</a></code> 
+
+          <code><a href="tulaikow.wheat.uniformity.html">tulaikow.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of winter/spring wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="turner.herbicide.html">turner.herbicide</a></code> 
+
+          <code><a href="turner.herbicide.html">turner.herbicide</a></code>
+
         </dt>
         <dd>Herbicide control of larkspur</dd>
       </dl><dl><dt>
-          
-          <code><a href="urquhart.feedlot.html">urquhart.feedlot</a></code> 
+
+          <code><a href="urquhart.feedlot.html">urquhart.feedlot</a></code>
+
         </dt>
         <dd>Weight gain calves in a feedlot</dd>
       </dl><dl><dt>
-          
-          <code><a href="usgs.herbicides.html">usgs.herbicides</a></code> 
+
+          <code><a href="usgs.herbicides.html">usgs.herbicides</a></code>
+
         </dt>
         <dd>Concentrations of herbicides in streams in the United States</dd>
       </dl><dl><dt>
-          
-          <code><a href="vaneeuwijk.drymatter.html">vaneeuwijk.drymatter</a></code> 
+
+          <code><a href="vaneeuwijk.drymatter.html">vaneeuwijk.drymatter</a></code>
+
         </dt>
         <dd>Multi-environment trial of maize, dry matter content</dd>
       </dl><dl><dt>
-          
-          <code><a href="vaneeuwijk.fusarium.html">vaneeuwijk.fusarium</a></code> 
+
+          <code><a href="vaneeuwijk.fusarium.html">vaneeuwijk.fusarium</a></code>
+
         </dt>
         <dd>Infection of wheat varieties by Fusarium strains from 1990 to 1993</dd>
       </dl><dl><dt>
-          
-          <code><a href="vaneeuwijk.nematodes.html">vaneeuwijk.nematodes</a></code> 
+
+          <code><a href="vaneeuwijk.nematodes.html">vaneeuwijk.nematodes</a></code>
+
         </dt>
         <dd>Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations.</dd>
       </dl><dl><dt>
-          
-          <code><a href="vargas.txe.html">vargas.txe.covs</a></code> <code><a href="vargas.txe.html">vargas.txe.yield</a></code> 
+
+          <code><a href="vargas.txe.html">vargas.txe.covs</a></code> <code><a href="vargas.txe.html">vargas.txe.yield</a></code>
+
         </dt>
         <dd>Treatment x environment interaction in agronomy trials</dd>
       </dl><dl><dt>
-          
-          <code><a href="vargas.wheat1.html">vargas.wheat1.covs</a></code> <code><a href="vargas.wheat1.html">vargas.wheat1.traits</a></code> 
+
+          <code><a href="vargas.wheat1.html">vargas.wheat1.covs</a></code> <code><a href="vargas.wheat1.html">vargas.wheat1.traits</a></code>
+
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         <dd>Wheat yields in 7 years with genetic and environment covariates</dd>
       </dl><dl><dt>
-          
-          <code><a href="vargas.wheat2.html">vargas.wheat2.covs</a></code> <code><a href="vargas.wheat2.html">vargas.wheat2.yield</a></code> 
+
+          <code><a href="vargas.wheat2.html">vargas.wheat2.covs</a></code> <code><a href="vargas.wheat2.html">vargas.wheat2.yield</a></code>
+
         </dt>
         <dd>Multi-environment trial of wheat with environmental covariates</dd>
       </dl><dl><dt>
-          
-          <code><a href="verbyla.lupin.html">verbyla.lupin</a></code> 
+
+          <code><a href="verbyla.lupin.html">verbyla.lupin</a></code>
+
         </dt>
         <dd>Multi-environment trial of lupin, multiple varieties and densities</dd>
       </dl><dl><dt>
-          
-          <code><a href="vishnaadevi.rice.uniformity.html">vishnaadevi.rice.uniformity</a></code> 
+
+          <code><a href="vishnaadevi.rice.uniformity.html">vishnaadevi.rice.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of rice</dd>
       </dl><dl><dt>
-          
-          <code><a href="vold.longterm.html">vold.longterm</a></code> 
+
+          <code><a href="vold.longterm.html">vold.longterm</a></code>
+
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         <dd>Long-term barley yields at different fertilizer levels</dd>
       </dl><dl><dt>
-          
-          <code><a href="vsn.lupin3.html">vsn.lupin3</a></code> 
+
+          <code><a href="vsn.lupin3.html">vsn.lupin3</a></code>
+
         </dt>
         <dd>Multi-environment trial of lupin, early generation trial</dd>
       </dl><dl><dt>
-          
-          <code><a href="wallace.iowaland.html">wallace.iowaland</a></code> 
+
+          <code><a href="wallace.iowaland.html">wallace.iowaland</a></code>
+
         </dt>
         <dd>Iowa farmland values by county in 1925</dd>
       </dl><dl><dt>
-          
-          <code><a href="walsh.cottonprice.html">walsh.cottonprice</a></code> 
+
+          <code><a href="walsh.cottonprice.html">walsh.cottonprice</a></code>
+
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         <dd>Acres and price of cotton 1910-1943</dd>
       </dl><dl><dt>
-          
-          <code><a href="wassom.brome.uniformity.html">wassom.brome.uniformity</a></code> 
+
+          <code><a href="wassom.brome.uniformity.html">wassom.brome.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trials of bromegrass</dd>
       </dl><dl><dt>
-          
-          <code><a href="waynick.soil.html">waynick.soil</a></code> 
+
+          <code><a href="waynick.soil.html">waynick.soil</a></code>
+
         </dt>
         <dd>Soil nitrogen and carbon in two fields</dd>
       </dl><dl><dt>
-          
-          <code><a href="wedderburn.barley.html">wedderburn.barley</a></code> 
+
+          <code><a href="wedderburn.barley.html">wedderburn.barley</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley, percent of leaves affected by leaf blotch</dd>
       </dl><dl><dt>
-          
-          <code><a href="weiss.incblock.html">weiss.incblock</a></code> 
+
+          <code><a href="weiss.incblock.html">weiss.incblock</a></code>
+
         </dt>
         <dd>Soybean balanced incomplete block experiment</dd>
       </dl><dl><dt>
-          
-          <code><a href="weiss.lattice.html">weiss.lattice</a></code> 
+
+          <code><a href="weiss.lattice.html">weiss.lattice</a></code>
+
         </dt>
         <dd>Lattice experiment in soybeans.</dd>
       </dl><dl><dt>
-          
-          <code><a href="welch.bermudagrass.html">welch.bermudagrass</a></code> 
+
+          <code><a href="welch.bermudagrass.html">welch.bermudagrass</a></code>
+
         </dt>
         <dd>Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers</dd>
       </dl><dl><dt>
-          
-          <code><a href="wheatley.carrot.html">wheatley.carrot</a></code> 
+
+          <code><a href="wheatley.carrot.html">wheatley.carrot</a></code>
+
         </dt>
         <dd>Insecticide treatments for carrot fly larvae</dd>
       </dl><dl><dt>
-          
-          <code><a href="wiebe.wheat.uniformity.html">wiebe.wheat.uniformity</a></code> 
+
+          <code><a href="wiebe.wheat.uniformity.html">wiebe.wheat.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of wheat</dd>
       </dl><dl><dt>
-          
-          <code><a href="wiedemann.safflower.uniformity.html">wiedemann.safflower.uniformity</a></code> 
+
+          <code><a href="wiedemann.safflower.uniformity.html">wiedemann.safflower.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of safflower</dd>
       </dl><dl><dt>
-          
-          <code><a href="williams.barley.uniformity.html">williams.barley.uniformity</a></code> 
+
+          <code><a href="williams.barley.uniformity.html">williams.barley.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of barley</dd>
       </dl><dl><dt>
-          
-          <code><a href="williams.cotton.uniformity.html">williams.cotton.uniformity</a></code> 
+
+          <code><a href="williams.cotton.uniformity.html">williams.cotton.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of cotton</dd>
       </dl><dl><dt>
-          
-          <code><a href="williams.trees.html">williams.trees</a></code> 
+
+          <code><a href="williams.trees.html">williams.trees</a></code>
+
         </dt>
         <dd>Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand</dd>
       </dl><dl><dt>
-          
-          <code><a href="woodman.pig.html">woodman.pig</a></code> 
+
+          <code><a href="woodman.pig.html">woodman.pig</a></code>
+
         </dt>
         <dd>Weight gain in pigs for different treatments</dd>
       </dl><dl><dt>
-          
-          <code><a href="wyatt.multi.uniformity.html">wyatt.multi.uniformity</a></code> 
+
+          <code><a href="wyatt.multi.uniformity.html">wyatt.multi.uniformity</a></code>
+
         </dt>
         <dd>Uniformity trial of oats and wheat on the same ground.</dd>
       </dl><dl><dt>
-          
-          <code><a href="yan.winterwheat.html">yan.winterwheat</a></code> 
+
+          <code><a href="yan.winterwheat.html">yan.winterwheat</a></code>
+
         </dt>
         <dd>Multi-environment trial of winter wheat in Ontario</dd>
       </dl><dl><dt>
-          
-          <code><a href="yang.barley.html">yang.barley</a></code> 
+
+          <code><a href="yang.barley.html">yang.barley</a></code>
+
         </dt>
         <dd>Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta.</dd>
       </dl><dl><dt>
-          
-          <code><a href="yates.missing.html">yates.missing</a></code> 
+
+          <code><a href="yates.missing.html">yates.missing</a></code>
+
         </dt>
         <dd>Factorial experiment of potato, 3x3 with missing values</dd>
       </dl><dl><dt>
-          
-          <code><a href="yates.oats.html">yates.oats</a></code> 
+
+          <code><a href="yates.oats.html">yates.oats</a></code>
+
         </dt>
         <dd>Split-plot experiment of oats</dd>
       </dl><dl><dt>
-          
-          <code><a href="zuidhof.broiler.html">zuidhof.broiler</a></code> 
+
+          <code><a href="zuidhof.broiler.html">zuidhof.broiler</a></code>
+
         </dt>
         <dd>Daily weight, feed, egg measurements for a broiler chicken</dd>
       </dl></div>
@@ -1852,14 +2194,14 @@ <h2 id="all-functions">All functions<a class="anchor" aria-label="anchor" href="
 </div>
 
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+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Percent ground cover of herbage species and nettles.</h1>
-      
+
       <div class="d-none name"><code>ivins.herbs.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>herb</code></dt>
 <dd><p>percent ground cover of herbage species</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,19 +87,19 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Ivins, JD (1950). Weeds in relation to the establishment of the Ley.
-  <em>Grass and Forage Science</em>, 5, 237--242.
+  <em>Grass and Forage Science</em>, 5, 237–242.
   https://doi.org/10.1111/j.1365-2494.1950.tb01287.x</p>
 <p>O'Gorman, T.W. (2001). A comparison of the F-test, Friedman's test,
   and several aligned rank tests for the analysis of randomized complete
   blocks.
   <em>Journal of agricultural, biological, and environmental
-    statistics</em>, 6, 367--378.
+    statistics</em>, 6, 367–378.
   https://doi.org/10.1198/108571101317096578</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ivins.herbs</span><span class="op">)</span></span></span>
@@ -137,10 +123,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/friedman.test.html" class="external-link">friedman.test</a></span><span class="op">(</span><span class="va">herb</span> <span class="op">~</span> <span class="va">gen</span><span class="op">|</span><span class="va">block</span>, <span class="va">dat7</span><span class="op">)</span> <span class="co"># gen p-value .056</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +135,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/iyer.wheat.uniformity.html b/reference/iyer.wheat.uniformity.html
index f0ae9533..2c61d959 100644
--- a/reference/iyer.wheat.uniformity.html
+++ b/reference/iyer.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trials of wheat in India."><title>Uniformity trials of wheat in India — iyer.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trials of wheat in India — iyer.wheat.uniformity"><meta property="og:description" content="Uniformity trials of wheat in India."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of wheat in India</h1>
-      
+
       <div class="d-none name"><code>iyer.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, ounces per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -104,14 +90,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">iyer.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">iyer.wheat.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"iyer.wheat.uniformity"</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, </span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="op">(</span><span class="fl">25</span><span class="op">*</span><span class="fl">5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">80</span><span class="op">*</span><span class="fl">5</span><span class="op">)</span><span class="op">)</span> <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span></span></span>
@@ -125,10 +111,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># sd(dat$yield)/mean(dat$yield)</span></span></span>
 <span class="r-in"><span><span class="co"># 18.3</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 9d19e18e..6f8124ce 100644
--- a/reference/jansen.apple.html
+++ b/reference/jansen.apple.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Infestation of apple shoots by apple canker."><title>Infestation of apple shoots by apple canker. — jansen.apple • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Infestation of apple shoots by apple canker. — jansen.apple"><meta property="og:description" content="Infestation of apple shoots by apple canker."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Infestation of apple shoots by apple canker. — jansen.apple • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Infestation of apple shoots by apple canker. — jansen.apple"><meta name="description" content="Infestation of apple shoots by apple canker."><meta property="og:description" content="Infestation of apple shoots by apple canker."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Infestation of apple shoots by apple canker.</h1>
-      
+
       <div class="d-none name"><code>jansen.apple.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>n</code></dt>
 <dd><p>number of inoculations</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,7 +74,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     galligena</em>, which may cause apple canker.</p>
 <p>The incoulum density treatment had 3 levels, measured in macroconidia
   per ml.</p>
-<p>There were 4 blocks.</p>  
+<p>There were 4 blocks.</p>
 
 <p>Used with permission of J. Jansen. Electronic version supplied by Miroslav Zoric.</p>
     </div>
@@ -96,7 +82,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>J. Jansen &amp; J.A. Hoekstra (1993).
   The analysis of proportions in agricultural experiments by a
-  generalized linear mixed model. 
+  generalized linear mixed model.
   Statistica Neerlandica, 47(3), 161-174.
   https://doi.org/10.1111/j.1467-9574.1993.tb01414.x</p>
     </div>
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jansen.apple</span><span class="op">)</span></span></span>
@@ -126,10 +112,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##             data=dat, family=binomial)</span></span></span>
 <span class="r-in"><span><span class="co">## summary(m1)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -138,14 +124,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/jansen.carrot.html b/reference/jansen.carrot.html
index 5852f387..9dbde2f5 100644
--- a/reference/jansen.carrot.html
+++ b/reference/jansen.carrot.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Infestation of 16 carrot genotypes by fly larvae, comparing 2
-  treatments in 16 blocks."><title>Infestation of carrots by fly larvae — jansen.carrot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Infestation of carrots by fly larvae — jansen.carrot"><meta property="og:description" content="Infestation of 16 carrot genotypes by fly larvae, comparing 2
-  treatments in 16 blocks."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Infestation of carrots by fly larvae — jansen.carrot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Infestation of carrots by fly larvae — jansen.carrot"><meta name="description" content="Infestation of 16 carrot genotypes by fly larvae, comparing 2
+  treatments in 16 blocks."><meta property="og:description" content="Infestation of 16 carrot genotypes by fly larvae, comparing 2
+  treatments in 16 blocks."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Infestation of carrots by fly larvae</h1>
-      
+
       <div class="d-none name"><code>jansen.carrot.Rd</code></div>
     </div>
 
@@ -83,15 +69,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>number of carrots infested per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>This experiment was designed to compare different genotypes of carrots
   with respect to their resistance to infestation by larvae of the
-  carrotfly.</p>  
+  carrotfly.</p>
 <p>There were 16 genotypes, 2 levels of pest-control treatments, conducted
   in 3 randomized complete blocks.  About 50 carrots were sampled from
   each plot and evaluated.  The data show the number of carrots and the
@@ -102,7 +88,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>J. Jansen &amp; J.A. Hoekstra (1993).
   The analysis of proportions in agricultural experiments by a
-  generalized linear mixed model. 
+  generalized linear mixed model.
   Statistica Neerlandica, 47(3), 161-174.
   https://doi.org/10.1111/j.1467-9574.1993.tb01414.x</p>
     </div>
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jansen.carrot</span><span class="op">)</span></span></span>
@@ -132,11 +118,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Todo: Why are these results different from Jansen?</span></span></span>
 <span class="r-in"><span>  <span class="co"># Maybe he used ungrouped bernoulli data?  Too slow with 4700 obs  </span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -145,14 +131,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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-  
 
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diff --git a/reference/jansen.strawberry.html b/reference/jansen.strawberry.html
index 3e3f983c..f5e9da7f 100644
--- a/reference/jansen.strawberry.html
+++ b/reference/jansen.strawberry.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Ordered disease ratings of strawberry crosses."><title>Ordered disease ratings of strawberry crosses. — jansen.strawberry • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Ordered disease ratings of strawberry crosses. — jansen.strawberry"><meta property="og:description" content="Ordered disease ratings of strawberry crosses."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Ordered disease ratings of strawberry crosses. — jansen.strawberry • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Ordered disease ratings of strawberry crosses. — jansen.strawberry"><meta name="description" content="Ordered disease ratings of strawberry crosses."><meta property="og:description" content="Ordered disease ratings of strawberry crosses."><meta property="og:image" content="/logo.png"></head><body>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Ordered disease ratings of strawberry crosses.</h1>
-      
+
       <div class="d-none name"><code>jansen.strawberry.Rd</code></div>
     </div>
 
@@ -80,11 +66,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>count</code></dt>
 <dd><p>number of plants in each category</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>In strawberries, red core disease is caused by a fungus,
   <em>Phytophtora fragariae</em>.  This experiment evaluated different
@@ -110,7 +96,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -131,10 +117,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># m1 &lt;- loglm( ~ 1*2 + 3, dtab) # Fails, only with devtools</span></span></span>
 <span class="r-in"><span><span class="co"># mosaic(m1)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -143,14 +129,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/jayaraman.bamboo.html b/reference/jayaraman.bamboo.html
index c3f16921..46392eec 100644
--- a/reference/jayaraman.bamboo.html
+++ b/reference/jayaraman.bamboo.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Bamboo progeny trial in 2 locations, 3 blocks"><title>Bamboo progeny trial — jayaraman.bamboo • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Bamboo progeny trial — jayaraman.bamboo"><meta property="og:description" content="Bamboo progeny trial in 2 locations, 3 blocks"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Bamboo progeny trial</h1>
-      
+
       <div class="d-none name"><code>jayaraman.bamboo.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>height, cm</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jayaraman.bamboo</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">jayaraman.bamboo</span></span></span>
@@ -116,11 +102,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># more modern approach with mixed model, match variance components needed</span></span></span>
 <span class="r-in"><span>  <span class="co"># for equation 6.9, heritability of the half-sib averages as</span></span></span>
 <span class="r-in"><span>  <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">lme4</span><span class="fu">::</span><span class="fu"><a href="https://rdrr.io/pkg/lme4/man/lmer.html" class="external-link">lmer</a></span><span class="op">(</span><span class="va">height</span> <span class="op">~</span> <span class="fl">1</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">loc</span><span class="op">/</span><span class="va">block</span><span class="op">)</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">family</span><span class="op">/</span><span class="va">loc</span><span class="op">/</span><span class="va">block</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span>  <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/jegorow.oats.uniformity.html b/reference/jegorow.oats.uniformity.html
index 48cfa957..9cacc97d 100644
--- a/reference/jegorow.oats.uniformity.html
+++ b/reference/jegorow.oats.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of oats in Russia"><title>Uniformity trial of oats in Russia — jegorow.oats.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of oats in Russia — jegorow.oats.uniformity"><meta property="og:description" content="Uniformity trial of oats in Russia"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of oats in Russia</h1>
-      
+
       <div class="d-none name"><code>jegorow.oats.uniformity.Rd</code></div>
     </div>
 
@@ -74,15 +60,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot, kg</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>At the Sumskaya (Ssumy?) agricultural experimental station (Kharkov
   Governorate), a field was planted in April 1908 and harvested that
-  summer as plots 1 sazhen sqauare.  A 'sazhen' is 7 feet.</p>  
+  summer as plots 1 sazhen sqauare.  A 'sazhen' is 7 feet.</p>
 <p>Field width: 8 plots * 1 sazhen</p>
 <p>Field length: 30 plots * 1 sazhen</p>
 <p>Data typed by K.Wright from Roemer (1920), table 10.</p>
@@ -92,7 +78,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Jegorow, M. (1909).
   Zur Methodik des feldversuches.
   Russian Journ Expt Agric, 10, 502-520.
-  Has a uniformity trial of oats. 
+  Has a uniformity trial of oats.
   https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/510jAQAAIAAJ?hl=en</p>
     </div>
     <div class="section level2">
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jegorow.oats.uniformity</span><span class="op">)</span></span></span>
@@ -117,13 +103,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># Jegorow reports 2.03</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">10</span><span class="op">/</span><span class="fl">24</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"jegorow.oats.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -132,14 +118,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/jenkyn.mildew.html b/reference/jenkyn.mildew.html
index 1e608b4f..4de008de 100644
--- a/reference/jenkyn.mildew.html
+++ b/reference/jenkyn.mildew.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yields from treatment for mildew control"><title>Yields from treatment for mildew control — jenkyn.mildew • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yields from treatment for mildew control — jenkyn.mildew"><meta property="og:description" content="Yields from treatment for mildew control"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Yields from treatment for mildew control — jenkyn.mildew • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yields from treatment for mildew control — jenkyn.mildew"><meta name="description" content="Yields from treatment for mildew control"><meta property="og:description" content="Yields from treatment for mildew control"><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Yields from treatment for mildew control</h1>
-      
+
       <div class="d-none name"><code>jenkyn.mildew.Rd</code></div>
     </div>
 
@@ -73,11 +59,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield, tons/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>There were four spray treatments: 0 (none), 1 (early), 2 (late), R
   (repeated).</p>
@@ -90,7 +76,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Norman Draper and Irwin Guttman (1980).
   Incorporating Overlap Effects from Neighboring Units into Response
   Surface Models.
-  <em>Appl Statist</em>, 29, 128--134.
+  <em>Appl Statist</em>, 29, 128–134.
   https://doi.org/10.2307/2986297</p>
     </div>
     <div class="section level2">
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jenkyn.mildew</span><span class="op">)</span></span></span>
@@ -120,10 +106,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/stats/residuals.html" class="external-link">resid</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span><span class="op">~</span><span class="va">plot</span>, <span class="va">dat</span>, ylab<span class="op">=</span><span class="st">"Residual"</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"jenkyn.mildew - block model"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -132,14 +118,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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+
+
 
   </body></html>
 
diff --git a/reference/john.alpha.html b/reference/john.alpha.html
index de4d165f..9546a3f9 100644
--- a/reference/john.alpha.html
+++ b/reference/john.alpha.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Alpha lattice design of spring oats</h1>
-      
+
       <div class="d-none name"><code>john.alpha.Rd</code></div>
     </div>
 
@@ -82,16 +68,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>Column ordinate</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
-<p>A spring oats trial grown in Craibstone, near Aberdeen.
-  There were 24 varieties in 3 replicates, each consisting
-  of 6 incomplete blocks of 4 plots.  Planted in a resolvable
-  alpha design.</p>
+
+
+<p>A spring oats trial grown in Craibstone, near Aberdeen.  There were 24
+  varieties in 3 replicates, each consisting of 6 incomplete blocks of 4
+  plots.  Planted in a resolvable alpha design.</p>
 <p>Caution: Note that the table on page 146 of John &amp; Williams (1995) is
   NOT the physical layout.  The plots were laid out in a single line.</p>
     </div>
@@ -117,7 +102,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">john.alpha</span><span class="op">)</span></span></span>
@@ -266,10 +251,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">### H2 Cullis</span></span></span>
 <span class="r-in"><span>  <span class="fl">1</span><span class="op">-</span><span class="op">(</span><span class="va">av2</span> <span class="op">/</span> <span class="op">(</span><span class="fl">2</span> <span class="op">*</span> <span class="va">vc_g</span><span class="op">)</span><span class="op">)</span> <span class="co">#0.8091</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -278,14 +263,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Potato blight due to weather in Prosser, Washington</h1>
-      
+
       <div class="d-none name"><code>johnson.blight.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>precip.m</code></dt>
 <dd><p>precipitation in May when temp &gt; 5C, milimeters</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -89,7 +75,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Johnson, D.A. and Alldredge, J.R. and Vakoch, D.L. (1996).
   Potato late blight forecasting models for the semiarid environment of
-  south-central Washington. <em>Phytopathology</em>, 86, 480--484.
+  south-central Washington. <em>Phytopathology</em>, 86, 480–484.
   https://doi.org/10.1094/Phyto-86-480</p>
     </div>
     <div class="section level2">
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">johnson.blight</span><span class="op">)</span></span></span>
@@ -152,10 +138,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/splom.html" class="external-link">splom</a></span><span class="op">(</span><span class="va">dat</span><span class="op">[</span>,<span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'blight'</span>,<span class="st">'rain.am'</span>,<span class="st">'rain.ja'</span>,<span class="st">'precip.m'</span><span class="op">)</span><span class="op">]</span>,</span></span>
 <span class="r-in"><span>      main<span class="op">=</span><span class="st">"johnson.blight - indicator of blight"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/johnson.douglasfir.html b/reference/johnson.douglasfir.html
index 263056b5..6e8e8415 100644
--- a/reference/johnson.douglasfir.html
+++ b/reference/johnson.douglasfir.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="A study of small-plots of old-growth Douglas Fir in Oregon."><title>A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir"><meta property="og:description" content="A study of small-plots of old-growth Douglas Fir in Oregon."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir"><meta name="description" content="A study of small-plots of old-growth Douglas Fir in Oregon."><meta property="og:description" content="A study of small-plots of old-growth Douglas Fir in Oregon."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>A study of small-plots of old-growth Douglas Fir in Oregon.</h1>
-      
+
       <div class="d-none name"><code>johnson.douglasfir.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>volume</code></dt>
 <dd><p>volume per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -121,7 +107,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -130,14 +116,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/jones.corn.uniformity.html b/reference/jones.corn.uniformity.html
index 6f2415e6..845e1c1b 100644
--- a/reference/jones.corn.uniformity.html
+++ b/reference/jones.corn.uniformity.html
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of corn.</h1>
-      
+
       <div class="d-none name"><code>jones.corn.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, bu/ac</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -86,14 +72,14 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   presentation of the data here in order to be more consistent with the
   figures in the paper.</p>
 <p>The electronic supplemental data is in bu/ac, but the paper uses
-  kg/ha.</p>  
+  kg/ha.</p>
 <p>Used with permission of Marcus Jones.</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Jones, M., Harbur, M., &amp; Moore, K. J. (2021).
   Automating Uniformity Trials to Optimize Precision of Agronomic Field
-  Trials. 
+  Trials.
   Agronomy, 11(6), 1254.
   https://doi.org/10.3390/agronomy11061254</p>
     </div>
@@ -104,19 +90,19 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jones.corn.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">jones.corn.uniformity</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/desplot/" class="external-link">desplot</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># Compare to figure 5 of Jones et al.</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="op">(</span><span class="fl">12</span><span class="op">*</span><span class="fl">4.6</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">12</span><span class="op">*</span><span class="fl">3</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"jones.corn.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -125,14 +111,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/jurowski.wheat.uniformity.html b/reference/jurowski.wheat.uniformity.html
index eaa9e3d4..568b438d 100644
--- a/reference/jurowski.wheat.uniformity.html
+++ b/reference/jurowski.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat in Russia</h1>
-      
+
       <div class="d-none name"><code>jurowski.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, Pud per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -83,7 +69,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   otherwise extremely difficult to find.  There may be alternate ways
   the actual Russian name is translated into German/English.</p>
 <p>Likewise, the name "Jurowski" is very difficult to find and may have
-  other transliterations.</p>  
+  other transliterations.</p>
 <p>Sapehin gives the original source as:
   Arbeiten d. Vers.-St. d. Russ. Ges. f. Zuckerind. 1913.
   which may expand to
@@ -94,7 +80,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   If 4m tall 12m wide, then field is 144m wide x 160m long. This seems
   much more likely.</p>
 <p>Sapehin says the std dev is "21.8 pud".  A "pud" is a Russian unit of
-  weight equal to 16.38 kilograms.</p>  
+  weight equal to 16.38 kilograms.</p>
 <p>Data converted by OCR from Sapehin and hand-checked by K.Wright.</p>
     </div>
     <div class="section level2">
@@ -111,20 +97,20 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">jurowski.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">jurowski.wheat.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">40</span><span class="op">*</span><span class="fl">4</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">12</span><span class="op">*</span><span class="fl">12</span><span class="op">)</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"jurowski.wheat.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -133,14 +119,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/kadam.millet.uniformity.html b/reference/kadam.millet.uniformity.html
index ee32a4ea..3508577d 100644
--- a/reference/kadam.millet.uniformity.html
+++ b/reference/kadam.millet.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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-      
+
       <div class="d-none name"><code>kadam.millet.uniformity.Rd</code></div>
     </div>
 
@@ -77,19 +63,19 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, ounces</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Uniformity trials conducted during the kharip (monsoon) seasons of
   1933 and 1934 at Kundewadi, Niphad, in the district of Nasik,
   India. Bajari (pearl millet) strain 54 was used.</p>
-<p>In 1933:</p>  
-<p>Field width: 8 plots * 16.5 feet</p>  
-<p>Field length: 10 plots * 33 feet</p>  
-<p>In 1934:</p>  
+<p>In 1933:</p>
+<p>Field width: 8 plots * 16.5 feet</p>
+<p>Field length: 10 plots * 33 feet</p>
+<p>In 1934:</p>
 <p>Field width: 8 plots * 16.5 feet</p>
 <p>Field length: 20 plots * 16.5 feet</p>
     </div>
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -116,20 +102,20 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># similar to Kadam fig 1</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1933</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">10</span><span class="op">*</span><span class="fl">33</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">16.5</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kadam.millet.uniformity 1933"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1934</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">16.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">*</span><span class="fl">16.5</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kadam.millet.uniformity 1934"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -138,14 +124,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kalamkar.potato.uniformity.html b/reference/kalamkar.potato.uniformity.html
index 17daed74..7b162748 100644
--- a/reference/kalamkar.potato.uniformity.html
+++ b/reference/kalamkar.potato.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of potatoes at Saskatchewan, Canada, 1929."><title>Uniformity trial of potatoes — kalamkar.potato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of potatoes — kalamkar.potato.uniformity"><meta property="og:description" content="Uniformity trial of potatoes at Saskatchewan, Canada, 1929."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of potatoes — kalamkar.potato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of potatoes — kalamkar.potato.uniformity"><meta name="description" content="Uniformity trial of potatoes at Saskatchewan, Canada, 1929."><meta property="og:description" content="Uniformity trial of potatoes at Saskatchewan, Canada, 1929."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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       <span class="navbar-toggler-icon"></span>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of potatoes</h1>
-      
+
       <div class="d-none name"><code>kalamkar.potato.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kalamkar.potato.uniformity</span><span class="op">)</span></span></span>
@@ -121,14 +107,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Similar to figure 1 of Kalamkar</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">288</span><span class="op">/</span><span class="fl">132</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"kalamkar.potato.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kalamkar.wheat.uniformity.html b/reference/kalamkar.wheat.uniformity.html
index 9d290612..8f14ee6b 100644
--- a/reference/kalamkar.wheat.uniformity.html
+++ b/reference/kalamkar.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>kalamkar.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -77,13 +63,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>ears</code></dt>
 <dd><p>ears per half-meter</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>Kalamkar's paper published in 1932. Estimated crop year 1931.</p>  
+
+<p>Kalamkar's paper published in 1932. Estimated crop year 1931.</p>
 <p>Plot 18 of the Four Course Rotation Experiment, Great Hoos, at
   Rothamsted, UK was used.  Sown with Yeoman II wheat.</p>
 <p>Field width = 16 segments * 0.5 meters = 8 meters.</p>
@@ -115,7 +101,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kalamkar.wheat.uniformity</span><span class="op">)</span></span></span>
@@ -128,10 +114,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># sum(dat$ears) # 25850</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">ears</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">ears</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">80</span><span class="op">*</span><span class="fl">0.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">16</span><span class="op">*</span><span class="fl">1.64042</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kalamkar.wheat.uniformity - ears"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">80</span><span class="op">*</span><span class="fl">0.5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">16</span><span class="op">*</span><span class="fl">1.64042</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kalamkar.wheat.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -145,17 +131,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                     rowf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span>, colf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">dat</span><span class="op">[</span><span class="fu"><a href="https://rdrr.io/r/base/order.html" class="external-link">order</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">rowf</span>, <span class="va">dat</span><span class="op">$</span><span class="va">colf</span><span class="op">)</span>,<span class="op">]</span></span></span>
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">=</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fl">1</span>, data<span class="op">=</span><span class="va">dat</span>, resid<span class="op">=</span> <span class="op">~</span> <span class="fu">ar1</span><span class="op">(</span><span class="va">rowf</span><span class="op">)</span><span class="op">:</span><span class="fu">ar1</span><span class="op">(</span><span class="va">colf</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##             effect component std.error z.ratio bound pctch</span></span></span>
 <span class="r-in"><span>    <span class="co">##        rowf:colf!R  81.53      3.525      23       P 0  </span></span></span>
 <span class="r-in"><span>    <span class="co">## rowf:colf!rowf!cor  -0.09464   0.0277     -3.4     U 0.1</span></span></span>
 <span class="r-in"><span>    <span class="co">## rowf:colf!colf!cor   0.2976    0.02629    11       U 0.1</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/kang.maize.html b/reference/kang.maize.html
index 6fcb6540..f2c24b68 100644
--- a/reference/kang.maize.html
+++ b/reference/kang.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize in Louisianna at 4 locs in 3 years</h1>
-      
+
       <div class="d-none name"><code>kang.maize.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>loc</code></dt>
 <dd><p>location, 4 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -102,7 +88,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kang.maize</span><span class="op">)</span></span></span>
@@ -132,10 +118,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                   rain<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">.2</span>,<span class="fl">.34</span>,<span class="fl">.22</span>, <span class="fl">.28</span>,<span class="fl">.36</span>,<span class="fl">.61</span>, <span class="fl">.2</span>,<span class="fl">.43</span>,<span class="fl">.2</span>, <span class="fl">.36</span>,<span class="fl">.41</span>,<span class="fl">.22</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                   humid<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">82.8</span>,<span class="fl">91.1</span>,<span class="fl">85.4</span>, <span class="fl">88.1</span>,<span class="fl">90.9</span>,<span class="fl">88.6</span>, <span class="fl">95.4</span>,<span class="fl">90.4</span>,<span class="fl">86.7</span>, <span class="fl">95.6</span>,<span class="fl">89.5</span>,<span class="fl">85</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -144,14 +130,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index 5ca5276f..12646c56 100644
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+++ b/reference/kang.peanut.html
@@ -1,56 +1,42 @@
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       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
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-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of peanuts for 10 genotypes in 15 environments</h1>
-      
+
       <div class="d-none name"><code>kang.peanut.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>env</code></dt>
 <dd><p>environment factor, 15 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kang.peanut</span><span class="op">)</span></span></span>
@@ -129,10 +115,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># biplot(m2, main="kang.peanut - GGE biplot")</span></span></span>
 <span class="r-in"><span><span class="co"># biplot(m2, comps=3:4, main="kang.peanut - GGE biplot")</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/karcher.turfgrass.html b/reference/karcher.turfgrass.html
index 49cf25a2..010323e4 100644
--- a/reference/karcher.turfgrass.html
+++ b/reference/karcher.turfgrass.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Turfgrass ratings for different treatments"><title>Turfgrass ratings for different treatments — karcher.turfgrass • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Turfgrass ratings for different treatments — karcher.turfgrass"><meta property="og:description" content="Turfgrass ratings for different treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Turfgrass ratings for different treatments — karcher.turfgrass • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Turfgrass ratings for different treatments — karcher.turfgrass"><meta name="description" content="Turfgrass ratings for different treatments"><meta property="og:description" content="Turfgrass ratings for different treatments"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
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-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Turfgrass ratings for different treatments</h1>
-      
+
       <div class="d-none name"><code>karcher.turfgrass.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>count</code></dt>
 <dd><p>number of samples for a given rating</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">karcher.turfgrass</span><span class="op">)</span></span></span>
@@ -146,10 +132,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## 3     M3   1.5  3.5 0.0023    0.48 0.52    0.0042</span></span></span>
 <span class="r-in"><span><span class="co">## 4     M4   1.5  3.5 0.0086    0.57 0.42    0.0035</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -158,14 +144,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kayad.alfalfa.html b/reference/kayad.alfalfa.html
index fe406568..4685779a 100644
--- a/reference/kayad.alfalfa.html
+++ b/reference/kayad.alfalfa.html
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       <img src="../logo.png" class="logo" alt=""><h1>Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia.</h1>
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       <div class="d-none name"><code>kayad.alfalfa.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, tons/ha</p></dd>
 
-  
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     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -157,7 +143,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
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index 0f0b107c..028a8c04 100644
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Damage to potato tubers from lifting rods.</h1>
-      
+
       <div class="d-none name"><code>keen.potatodamage.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>count</code></dt>
 <dd><p>count of tubers in each combination of categories</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,7 +91,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>A. Keen and B. Engel.
   Analysis of a mixed model for ordinal data by iterative re-weighted REML.
-  Statistica Neerlandica, 51, 129--144. Table 2.
+  Statistica Neerlandica, 51, 129–144. Table 2.
   https://doi.org/10.1111/1467-9574.00044</p>
     </div>
     <div class="section level2">
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -147,10 +133,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># m2 &lt;- clmm(damage ~ rod + energy + gen + weight +</span></span></span>
 <span class="r-in"><span><span class="co">#          (1|rod:energy), data=dat, weights=count, link='probit')</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -159,14 +145,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kempton.barley.uniformity.html b/reference/kempton.barley.uniformity.html
index 0aed25d7..1bb48901 100644
--- a/reference/kempton.barley.uniformity.html
+++ b/reference/kempton.barley.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of barley at Cambridge, England, 1978."><title>Uniformity trial of barley — kempton.barley.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of barley — kempton.barley.uniformity"><meta property="og:description" content="Uniformity trial of barley at Cambridge, England, 1978."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of barley — kempton.barley.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of barley — kempton.barley.uniformity"><meta name="description" content="Uniformity trial of barley at Cambridge, England, 1978."><meta property="og:description" content="Uniformity trial of barley at Cambridge, England, 1978."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of barley</h1>
-      
+
       <div class="d-none name"><code>kempton.barley.uniformity.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield, kg</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -84,7 +70,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>R. A. Kempton and C. W. Howes (1981).
   The use of neighbouring plot values in the analysis of variety trials.
-  Applied Statistics, 30, 59--70.
+  Applied Statistics, 30, 59–70.
   https://doi.org/10.2307/2346657</p>
     </div>
     <div class="section level2">
@@ -92,20 +78,20 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science. 462, 2119--2143.
+    Engineering Science. 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kempton.barley.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">kempton.barley.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">140</span><span class="op">/</span><span class="fl">98</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kempton.barley.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -151,10 +137,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -163,14 +149,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kempton.competition.html b/reference/kempton.competition.html
index 59589170..75dbdda8 100644
--- a/reference/kempton.competition.html
+++ b/reference/kempton.competition.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Sugar beet trial with competition effects</h1>
-      
+
       <div class="d-none name"><code>kempton.competition.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -122,10 +108,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Variance of yield increases with yield</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">m1</span>, main<span class="op">=</span><span class="st">"kempton.competition"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -134,14 +120,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index 3d26bfe0..f256eaa4 100644
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+++ b/reference/kempton.rowcol.html
@@ -1,56 +1,42 @@
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-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Row-column experiment of wheat</h1>
-      
+
       <div class="d-none name"><code>kempton.rowcol.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -91,7 +77,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kempton.rowcol</span><span class="op">)</span></span></span>
@@ -99,7 +85,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, rowf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span>, colf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">rep</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">rep</span>,</span></span>
 <span class="r-in"><span>        num<span class="op">=</span><span class="va">gen</span>, out1<span class="op">=</span><span class="va">rep</span>, <span class="co"># unknown aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"kempton.rowcol"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -121,10 +107,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">sed</span><span class="op">)</span> <span class="co"># Average SED</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/Extremes.html" class="external-link">max</a></span><span class="op">(</span><span class="va">sed</span><span class="op">)</span> <span class="co"># Maximum SED</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -133,14 +119,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kempton.slatehall.html b/reference/kempton.slatehall.html
index 827a00a6..c73d9dcc 100644
--- a/reference/kempton.slatehall.html
+++ b/reference/kempton.slatehall.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yields for a Slate Hall Farm 1976 spring wheat trial."><title>Slate Hall Farm 1976 spring wheat — kempton.slatehall • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Slate Hall Farm 1976 spring wheat — kempton.slatehall"><meta property="og:description" content="Yields for a Slate Hall Farm 1976 spring wheat trial."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Slate Hall Farm 1976 spring wheat — kempton.slatehall • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Slate Hall Farm 1976 spring wheat — kempton.slatehall"><meta name="description" content="Yields for a Slate Hall Farm 1976 spring wheat trial."><meta property="og:description" content="Yields for a Slate Hall Farm 1976 spring wheat trial."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Slate Hall Farm 1976 spring wheat</h1>
-      
+
       <div class="d-none name"><code>kempton.slatehall.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (grams/plot)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kempton.slatehall</span><span class="op">)</span></span></span>
@@ -114,7 +100,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Besag 1993 figure 4.1 (left panel)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">grays</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"#d9d9d9"</span>,<span class="st">"#252525"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span> <span class="op">*</span> <span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span> <span class="op">*</span> <span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">40</span><span class="op">/</span><span class="fl">22.5</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="va">gen</span>, out1<span class="op">=</span><span class="va">rep</span>, col.regions<span class="op">=</span><span class="va">grays</span>, <span class="co"># unknown aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kempton.slatehall - spring wheat yields"</span><span class="op">)</span></span></span>
@@ -142,7 +128,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, xf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, yf<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">gen</span>, random <span class="op">=</span> <span class="op">~</span> <span class="va">rep</span><span class="op">/</span><span class="op">(</span><span class="va">xf</span><span class="op">+</span><span class="va">yf</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##          effect component std.error z.ratio constr</span></span></span>
 <span class="r-in"><span>    <span class="co">##     rep!rep.var      4262      6890    0.62    pos</span></span></span>
 <span class="r-in"><span>    <span class="co">##  rep:xf!rep.var     14810      4865    3       pos</span></span></span>
@@ -154,10 +140,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># predict(m2, data=dat, classify="gen")$pvals</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -166,14 +152,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/kenward.cattle.html b/reference/kenward.cattle.html
index bdccd7ae..cd0d79eb 100644
--- a/reference/kenward.cattle.html
+++ b/reference/kenward.cattle.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Repeated measurements of the weights of calves from a trial on the
-  control of intestinal parasites."><title>Repeated measurement of weights of calves with two treatments. — kenward.cattle • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Repeated measurement of weights of calves with two treatments. — kenward.cattle"><meta property="og:description" content="Repeated measurements of the weights of calves from a trial on the
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-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Repeated measurement of weights of calves with two treatments. — kenward.cattle • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Repeated measurement of weights of calves with two treatments. — kenward.cattle"><meta name="description" content="Repeated measurements of the weights of calves from a trial on the
+  control of intestinal parasites."><meta property="og:description" content="Repeated measurements of the weights of calves from a trial on the
+  control of intestinal parasites."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Repeated measurement of weights of calves with two treatments.</h1>
-      
+
       <div class="d-none name"><code>kenward.cattle.Rd</code></div>
     </div>
 
@@ -80,17 +66,17 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>bodyweight, kg</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Grazing cattle can ingest larvae, which deprives the host animal of
   nutrients and weakens the immune system, affecting the growth of the
   animal.</p>
 <p>Two treatments A and B were applied randomly to 60 animals
-  (30 each in two groups) to control the disease.</p>  
+  (30 each in two groups) to control the disease.</p>
 <p>Each animal was weighed 11 times at two-week intervals (one week
   between the final two measurements).</p>
 <p>Is there a difference in treatments, and when does that difference
@@ -100,20 +86,20 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Kenward, Michael G. (1987).
   A Method for Comparing Profiles of Repeated Measurements.
-  <em>Applied Statistics</em>, 36, 296-308.  Table 1.  
+  <em>Applied Statistics</em>, 36, 296-308.  Table 1.
   https://doi.org/10.2307/2347788</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>W. Zhang, C. Leng and C. Y. Tang (2015).
   A joint modelling approach for longitudinal studies
-  <em>J. R. Statist. Soc. B</em>, 77 (2015), 219--238.
+  <em>J. R. Statist. Soc. B</em>, 77 (2015), 219–238.
   https://doi.org/10.1111/rssb.12065</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kenward.cattle</span><span class="op">)</span></span></span>
@@ -198,10 +184,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">##           R!variance 267       14.84       18       pos</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -210,14 +196,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kerr.sugarcane.uniformity.html b/reference/kerr.sugarcane.uniformity.html
index d4295942..8b9f02ea 100644
--- a/reference/kerr.sugarcane.uniformity.html
+++ b/reference/kerr.sugarcane.uniformity.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of sugarcane, 4 fields</h1>
-      
+
       <div class="d-none name"><code>kerr.sugarcane.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>trial</code></dt>
 <dd><p>trial number</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -93,7 +79,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>H. W. Kerr (1939). Notes on plot technique.
-  Proc. Internat. Soc. Sugarcane Technol. 6, 764--778.</p>
+  Proc. Internat. Soc. Sugarcane Technol. 6, 764–778.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
@@ -102,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kerr.sugarcane.uniformity</span><span class="op">)</span></span></span>
@@ -110,7 +96,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># match Kerr figure 4</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">trial</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">trial</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"kerr.sugarcane.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -122,10 +108,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## 3    T3 10.37</span></span></span>
 <span class="r-in"><span><span class="co">## 4    T4 13.76</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -134,14 +120,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index 18801b7c..3fcb25ee 100644
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@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of brassica.</h1>
-      
+
       <div class="d-none name"><code>khan.brassica.uniformity.Rd</code></div>
     </div>
 
@@ -77,14 +63,14 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, 1/8 ounce</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Two different fields were used, representing the average type of soil
   at Lyallpur.
   An area of 90 ft by 90 ft was marked out and harvested as individual
-  plots 5 feet per side.</p>  
+  plots 5 feet per side.</p>
 <p>This data was copied from a pdf and hand-corrected.</p>
     </div>
     <div class="section level2">
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">khan.brassica.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">khan.brassica.uniformity</span></span></span>
@@ -113,14 +99,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">##   summarize(mn=mean(yield), sd=sd(yield))</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span> <span class="op">|</span> <span class="va">field</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span> <span class="op">|</span> <span class="va">field</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"khan.brassica.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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   </body></html>
 
diff --git a/reference/khin.rice.uniformity.html b/reference/khin.rice.uniformity.html
index 177ddd96..a88b3bf5 100644
--- a/reference/khin.rice.uniformity.html
+++ b/reference/khin.rice.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of rice in Burma, 1948."><title>Uniformity trial of rice — khin.rice.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of rice — khin.rice.uniformity"><meta property="og:description" content="Uniformity trial of rice in Burma, 1948."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of rice — khin.rice.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of rice — khin.rice.uniformity"><meta name="description" content="Uniformity trial of rice in Burma, 1948."><meta property="og:description" content="Uniformity trial of rice in Burma, 1948."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of rice</h1>
-      
+
       <div class="d-none name"><code>khin.rice.uniformity.Rd</code></div>
     </div>
 
@@ -74,13 +60,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, oz/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>A uniformity trial of rice. Conducted at the Mudon Agricultural
   Station, Burma, in 1947-48.  Basic plots were 3 feet square.</p>
-<p>Field width: 30 plots * 3 feet.</p>  
+<p>Field width: 30 plots * 3 feet.</p>
 <p>Field length: 36 plots * 3 feet.</p>
 <p>Data typed by K.Wright.</p>
     </div>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -108,15 +94,15 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">khin.rice.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"khin.rice.uniformity"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">36</span><span class="op">*</span><span class="fl">3</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">30</span><span class="op">*</span><span class="fl">3</span><span class="op">)</span><span class="op">)</span> <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -125,14 +111,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kiesselbach.oats.uniformity.html b/reference/kiesselbach.oats.uniformity.html
index e0b746ed..ae8112fa 100644
--- a/reference/kiesselbach.oats.uniformity.html
+++ b/reference/kiesselbach.oats.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of oats at Nebraska in 1916."><title>Uniformity trial of oats — kiesselbach.oats.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of oats — kiesselbach.oats.uniformity"><meta property="og:description" content="Uniformity trial of oats at Nebraska in 1916."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of oats — kiesselbach.oats.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of oats — kiesselbach.oats.uniformity"><meta name="description" content="Uniformity trial of oats at Nebraska in 1916."><meta property="og:description" content="Uniformity trial of oats at Nebraska in 1916."><meta property="og:image" content="/logo.png"></head><body>
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-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of oats</h1>
-      
+
       <div class="d-none name"><code>kiesselbach.oats.uniformity.Rd</code></div>
     </div>
 
@@ -74,18 +60,18 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield bu/ac</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiment conducted in 1916.  Crop was Kerson oats. Each plot covered 1/30th acre.
   Oats were drilled in plats 66 inches wide by 16 rods long. The drill
   was 66 inches wide.  Plats were separated by a space of 16 inches
-  between outside drill rows.</p>  
-<p>The source document includes three photographs of the field.</p>  
-<p>1 acre = 43560 sq feet</p>  
+  between outside drill rows.</p>
+<p>The source document includes three photographs of the field.</p>
+<p>1 acre = 43560 sq feet</p>
 <p>1/30 acre = 1452 sq feet = 16 rods * 16.5 ft/rod * 5.5 ft</p>
 <p>Field width: 3 plats * 16 rods/plat * 16.5 ft/rod = 792 feet</p>
 <p>Field length: 69 plats * 5.5 ft + 68 gaps * 1.33 feet = 469 feet</p>
@@ -106,7 +92,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -116,14 +102,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/range.html" class="external-link">range</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 56.7 92.8 match Kiesselbach p 64.</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">792</span><span class="op">/</span><span class="fl">469</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kiesselbach.oats.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -132,14 +118,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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+
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diff --git a/reference/kirk.potato.html b/reference/kirk.potato.html
index 90bae731..9948e2ec 100644
--- a/reference/kirk.potato.html
+++ b/reference/kirk.potato.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Variety trial of potatoes, highly replicated</h1>
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+
       <div class="d-none name"><code>kirk.potato.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -106,22 +92,22 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kirk.potato</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">kirk.potato</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"kirk.potato"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Match means in Table I</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">dplyr</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -130,14 +116,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/kling.augmented.html b/reference/kling.augmented.html
index 6b89563b..6cbeada5 100644
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+++ b/reference/kling.augmented.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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-</li>
-<li class="nav-item">
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-    <span class="fab fa fab fa-github fa-lg"></span>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Augmented design of meadowfoam</h1>
-      
+
       <div class="d-none name"><code>kling.augmented.Rd</code></div>
     </div>
 
@@ -86,7 +72,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>Column ordinate</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -110,24 +96,24 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kling.augmented</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">kling.augmented</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span>,<span class="va">lattice</span>,<span class="va">lme4</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># Layout and yields</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">tsw</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, text<span class="op">=</span><span class="va">name</span>, cex<span class="op">=</span><span class="fl">1.5</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">tsw</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, text<span class="op">=</span><span class="va">name</span>, cex<span class="op">=</span><span class="fl">1.5</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Mixed model, fixed blocks, random genotypes</span></span></span>
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu">lmer</span><span class="op">(</span><span class="va">tsw</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="op">(</span><span class="fl">1</span><span class="op">|</span><span class="va">name</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">ran1</span> <span class="op">&lt;-</span> <span class="fu">ranef</span><span class="op">(</span><span class="va">m1</span>, condVar<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">ran1</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">ran1</span><span class="op">)</span> <span class="co"># Caterpillar plot</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -136,14 +122,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/kreusler.maize.html b/reference/kreusler.maize.html
index 3ced87fb..b5845929 100644
--- a/reference/kreusler.maize.html
+++ b/reference/kreusler.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Growth of maize plants in Germany during 1875-1878."><title>Growth of maize plants in Germany during 1875-1878 — kreusler.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Growth of maize plants in Germany during 1875-1878 — kreusler.maize"><meta property="og:description" content="Growth of maize plants in Germany during 1875-1878."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Growth of maize plants in Germany during 1875-1878 — kreusler.maize • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Growth of maize plants in Germany during 1875-1878 — kreusler.maize"><meta name="description" content="Growth of maize plants in Germany during 1875-1878."><meta property="og:description" content="Growth of maize plants in Germany during 1875-1878."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Growth of maize plants in Germany during 1875-1878</h1>
-      
+
       <div class="d-none name"><code>kreusler.maize.Rd</code></div>
     </div>
 
@@ -113,11 +99,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>leafarea</code></dt>
 <dd><p>leaf area (cm^2) (flachenmaass der blatter)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiments were performed at Poppelsdorf, Germany (near Bonn) during
 the years 1875 to 1878.  Observations were collected weekly throughout
@@ -142,7 +128,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
+
 
 <p>The 1875-1876 data are from:</p>
 <p>A. Prehn &amp; G. Becker. (1878)
@@ -174,7 +160,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kreusler.maize</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">kreusler.maize</span></span></span>
@@ -232,11 +218,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       type<span class="op">=</span><span class="st">'l'</span>, auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">5</span><span class="op">)</span>, as.table<span class="op">=</span><span class="cn">TRUE</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">tassel</span><span class="op">~</span><span class="va">doy</span><span class="op">|</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">year</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span>, group<span class="op">=</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>       type<span class="op">=</span><span class="st">'l'</span>, auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">5</span><span class="op">)</span>, as.table<span class="op">=</span><span class="cn">TRUE</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -245,14 +231,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/kristensen.barley.uniformity.html b/reference/kristensen.barley.uniformity.html
index 3dcb76c1..a40f71fc 100644
--- a/reference/kristensen.barley.uniformity.html
+++ b/reference/kristensen.barley.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of barley conducted in Denmark, 1905."><title>Uniformity trial of barley — kristensen.barley.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of barley — kristensen.barley.uniformity"><meta property="og:description" content="Uniformity trial of barley conducted in Denmark, 1905."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of barley — kristensen.barley.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of barley — kristensen.barley.uniformity"><meta name="description" content="Uniformity trial of barley conducted in Denmark, 1905."><meta property="og:description" content="Uniformity trial of barley conducted in Denmark, 1905."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of barley</h1>
-      
+
       <div class="d-none name"><code>kristensen.barley.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, hectograms/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -86,7 +72,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   the aspect used in the example below aligns well with Kristensen
   figure 1.</p>
 <p>Field width: 22 plots * 8.79 m</p>
-<p>Field length: 11 plots * 6.24 m</p>  
+<p>Field length: 11 plots * 6.24 m</p>
 <p>Notes from Kristensen: Fig 5 is a 3x3 moving average, Fig 6 is
   deviation from the trend, Fig 7 is the field average added to the
   deviation.  Fig 13 is another uniformity trial of barley in 1924, Fig
@@ -94,7 +80,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    <p>R. K. Kristensen (1925). 
+    <p>R. K. Kristensen (1925).
   Anlaeg og Opgoerelse af Markforsoeg.
   Tidsskrift for landbrugets planteavl, Vol 31, 464-494.
   Fig 1, pg. 467.
@@ -111,21 +97,21 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">kristensen.barley.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">kristensen.barley.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">11</span><span class="op">*</span><span class="fl">6.24</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">22</span><span class="op">*</span><span class="fl">8.79</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"kristensen.barley.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -134,14 +120,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/kulkarni.sorghum.uniformity.html b/reference/kulkarni.sorghum.uniformity.html
index 236e79d0..7994bbd6 100644
--- a/reference/kulkarni.sorghum.uniformity.html
+++ b/reference/kulkarni.sorghum.uniformity.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sorghum</h1>
-      
+
       <div class="d-none name"><code>kulkarni.sorghum.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -89,9 +75,9 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   The 160 plots were arranged in forty rows of four columns, and the yields were
   measured in tolas. The plot division was kept intact for three years, and the
   yields of the 160 plots are available for three consecutive harvests. The original
-  data are given in Appendix I.</p>  
-<p>Field width: 4 plots * 72.5 feet = 290 feet</p>  
-<p>Field length: 40 plots * 3.75 feet = 150 feet</p>  
+  data are given in Appendix I.</p>
+<p>Field width: 4 plots * 72.5 feet = 290 feet</p>
+<p>Field length: 40 plots * 3.75 feet = 150 feet</p>
 <p>Conclusions: "Thus, highly narrow strips of plots (length much greater than breadth) lead
   to greater precision than plots of same area but much wider and not so narrow."</p>
 <p>Correlation of plots from year to years was low.</p>
@@ -99,7 +85,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Kulkarni, R. K., Bose, S. S., and Mahalanobis, P. C.  (1936).
-  The influence of shape and size of plots on the effective precision of field experiments with sorghum. 
+  The influence of shape and size of plots on the effective precision of field experiments with sorghum.
   Indian J. Agric. Sci., 6, 460-474. Appendix 1, page 172.
   https://archive.org/details/in.ernet.dli.2015.271737</p>
     </div>
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/cor.html" class="external-link">cor</a></span><span class="op">(</span><span class="va">dmat</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">150</span><span class="op">/</span><span class="fl">290</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"kulkarni.sorghum.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -145,14 +131,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index b81be847..943faf16 100644
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+++ b/reference/lambert.soiltemp.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Average monthly soil temperature near Zurich, at seven depths,
-  averaged over four years."><title>Average monthly soil temperature near Zurich — lambert.soiltemp • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Average monthly soil temperature near Zurich — lambert.soiltemp"><meta property="og:description" content="Average monthly soil temperature near Zurich, at seven depths,
-  averaged over four years."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  averaged over four years."><meta property="og:description" content="Average monthly soil temperature near Zurich, at seven depths,
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       <img src="../logo.png" class="logo" alt=""><h1>Average monthly soil temperature near Zurich</h1>
-      
+
       <div class="d-none name"><code>lambert.soiltemp.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>temp</code></dt>
 <dd><p>temperature (the units are "du Crest")</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,13 +80,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Johann Heinrich Lambert (1779), <em>Pyrometrie</em>.  Page 358.
-  https://books.google.com/books?id=G5I_AAAAcAAJ&amp;pg=PA358</p>  
+  https://books.google.com/books?id=G5I_AAAAcAAJ&amp;pg=PA358</p>
 <p>Graph: https://www.fisme.science.uu.nl/wiskrant/artikelen/hist_grafieken/begin/images/pyrometrie.gif</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># Reproduce Lambert figure 39.</span></span></span>
@@ -119,10 +105,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       span<span class="op">=</span><span class="fl">.2</span>, auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># To do: Find a good model for this data</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -131,14 +117,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of wheat and chari, 4 years on the same land.</h1>
-      
+
       <div class="d-none name"><code>lander.multi.uniformity.Rd</code></div>
     </div>
 
@@ -80,15 +66,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>crop</code></dt>
 <dd><p>crop</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Note, "chari" in this paper is <em>Andropogon Sorghum</em>, and "wheat"
-  is <em>Triticum vulgare</em>.</p>  
-<p>Uniformity trials carried out at Rawalpindi, India.</p>  
+  is <em>Triticum vulgare</em>.</p>
+<p>Uniformity trials carried out at Rawalpindi, India.</p>
 <p>The area consisted of 5 fields (D4,D5,D6,D7,D8), each 5 acres in
   size. Each of these 5 fields was divided into three sub-divisions A,
   B, C, by means of two strong bunds each 5 feet wide. These 3
@@ -97,9 +83,9 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   separating the plots from the other. The dimensions of the plot were
   207 ft 5 in by 19 ft 1 in.</p>
 <p>The same land was used for 4 consecutive crops. The first crop was
-  wheat, followed by chari (sorghum), followed by wheat 2 times.</p>  
+  wheat, followed by chari (sorghum), followed by wheat 2 times.</p>
 <p>Field width: 207.42 * 5 plots = 1037.1 feet</p>
-<p>Field length: (19.08+5)*39 rows = 939.12 feet</p>  
+<p>Field length: (19.08+5)*39 rows = 939.12 feet</p>
 <p>Conclusions: It is evident, therefore, that soil heterogenity as
   revealed by any one  crop cannot be a true index of the subsequent
   behavior of that area with respect to other crops. Even the same crop
@@ -119,7 +105,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lander.multi.uniformity</span><span class="op">)</span></span></span>
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># heatmaps for all years</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span><span class="op">$</span><span class="va">year</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">year</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">1037.1</span><span class="op">/</span><span class="fl">939.12</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"lander.multi.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
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index 3e74dfa6..ed9608cd 100644
--- a/reference/lasrosas.corn.html
+++ b/reference/lasrosas.corn.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield monitor data for a corn field in Argentina with variable nitrogen."><title>Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn"><meta property="og:description" content="Yield monitor data for a corn field in Argentina with variable nitrogen."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn"><meta name="description" content="Yield monitor data for a corn field in Argentina with variable nitrogen."><meta property="og:description" content="Yield monitor data for a corn field in Argentina with variable nitrogen."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Yield monitor data for a corn field in Argentina with variable nitrogen.</h1>
-      
+
       <div class="d-none name"><code>lasrosas.corn.Rd</code></div>
     </div>
 
@@ -92,11 +78,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>nf</code></dt>
 <dd><p>nitrogen as a factor, N0-N4</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Corn yield and nitrogen fertilizer treatment with field characteristics
   for the Las Rosas farm, Rio Cuarto, Cordoba, Argentina.</p>
@@ -117,7 +103,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   randomized within one rep, but the same randomization was used in the
   other two reps.</p>
 <p>Anselin et al. used corn grain price of $6.85/quintal and nitrogen
-  cost of $0.4348/kg.</p>  
+  cost of $0.4348/kg.</p>
 <p>The corners of the field in 1999 are:
   https://www.google.com/maps/place/-33.0501258,-63.8488636
   https://www.google.com/maps/place/-33.05229635,-63.84181819</p>
@@ -141,7 +127,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 <p>Anselin, L., R. Bongiovanni, J. Lowenberg-DeBoer (2004).
   A spatial econometric approach to the economics of site-specific
   nitrogen management in corn production.
-  American Journal of Agricultural Economics, 86, 675--687.
+  American Journal of Agricultural Economics, 86, 675–687.
   https://doi.org/10.1111/j.0002-9092.2004.00610.x</p>
 <p>Lambert, Lowenberg-Deboer, Bongiovanni (2004).
   A Comparison of Four Spatial Regression Models for Yield Monitor Data:
@@ -158,7 +144,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lasrosas.corn</span><span class="op">)</span></span></span>
@@ -190,10 +176,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fl">1</span> <span class="op">+</span> <span class="va">nitro</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/base/AsIs.html" class="external-link">I</a></span><span class="op">(</span><span class="va">nitro</span><span class="op">^</span><span class="fl">2</span><span class="op">)</span>, data<span class="op">=</span><span class="va">d1</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1999</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/coef.html" class="external-link">coef</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -202,14 +188,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/lavoranti.eucalyptus.html b/reference/lavoranti.eucalyptus.html
index c22b2a1b..980d5b5b 100644
--- a/reference/lavoranti.eucalyptus.html
+++ b/reference/lavoranti.eucalyptus.html
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       <img src="../logo.png" class="logo" alt=""><h1>Height of Eucalyptus trees in southern Brazil</h1>
-      
+
       <div class="d-none name"><code>lavoranti.eucalyptus.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>height</code></dt>
 <dd><p>height, meters</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Arciniegas-Alarcon et al use SVD and regression to estimate missing values.</span></span></span>
 <span class="r-in"><span><span class="co"># Partition the matrix X as a missing value xm, row vector xr1, column</span></span></span>
@@ -128,10 +114,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">xm</span> <span class="op">&lt;-</span> <span class="va">xr1</span> </span></span>
 <span class="r-in"><span><span class="va">xm</span> <span class="co"># = 18.29, Original value was 17.4</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
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@@ -140,14 +126,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/laycock.tea.uniformity.html b/reference/laycock.tea.uniformity.html
index 4dd2ac1c..9fc6f25a 100644
--- a/reference/laycock.tea.uniformity.html
+++ b/reference/laycock.tea.uniformity.html
@@ -1,56 +1,42 @@
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of tea</h1>
-      
+
       <div class="d-none name"><code>laycock.tea.uniformity.Rd</code></div>
     </div>
 
@@ -77,15 +63,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (pounds)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Actual physical dimensions for the tea shrubs are not given, so we use
   an estimate of four feet square for each shrub (which is similar to
-  the <code>eden.tea.uniformity</code> experiment).</p>  
+  the <code>eden.tea.uniformity</code> experiment).</p>
 <p>Location 1 (Laycock, page 108) is at the Research Station,
-  Nyasaland. Plots were 10 by 15 bushes, harvested 23 times in 1942.</p>  
+  Nyasaland. Plots were 10 by 15 bushes, harvested 23 times in 1942.</p>
 <p>Field length: 8 plots * 10 bushes * 4 feet = 320 feet.</p>
 <p>Field width: 4 plots * 15 bushes * 4 feet = 240 feet.</p>
 <p>Location 2 (Laycock page 110) is at Mianga Estate, Nyasaland. Plots
@@ -109,7 +95,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -117,15 +103,15 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">laycock.tea.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">322</span><span class="op">/</span><span class="fl">252</span>, <span class="co"># average of 2 locs</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"laycock.tea.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -134,14 +120,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/lee.potatoblight.html b/reference/lee.potatoblight.html
index 3e12c505..c609a46f 100644
--- a/reference/lee.potatoblight.html
+++ b/reference/lee.potatoblight.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Repeated measurements of resistance to potato blight."><title>Repeated measurements of resistance to potato blight — lee.potatoblight • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Repeated measurements of resistance to potato blight — lee.potatoblight"><meta property="og:description" content="Repeated measurements of resistance to potato blight."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Repeated measurements of resistance to potato blight</h1>
-      
+
       <div class="d-none name"><code>lee.potatoblight.Rd</code></div>
     </div>
 
@@ -86,11 +72,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>score 1-9 for blight resistance</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>These data werre collected from biennial screening trials conducted by
 the New Zealand Institute of Crop and Food Research at the Pukekohe
@@ -117,7 +103,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 used in later testing.  For example, among the changes made were the
 following:</p><table class="table table"><tr><td>Driver</td><td>287.12</td></tr><tr><td>Kiwitea</td><td>064/56</td></tr><tr><td>Gladiator</td><td>1308.66</td></tr><tr><td>Karaka</td><td>221.17</td></tr><tr><td>Kiwitea</td><td>064.56 maybe 064.54</td></tr><tr><td>Moonlight</td><td>511.1</td></tr><tr><td>Pacific</td><td>177.3</td></tr><tr><td>Red Rascal</td><td>1830.11</td></tr><tr><td>Rua</td><td>155.05</td></tr><tr><td>Summit</td><td>517.12</td></tr><tr><td>White Delight</td><td>1949.64</td></tr></table><p>Used with permission of Arier Chi-Lun Lee and John Anderson.</p>
 <p>Data retrieved from
-  https://researchspace.auckland.ac.nz/handle/2292/5240.</p>  
+  https://researchspace.auckland.ac.nz/handle/2292/5240.</p>
 <p>Licensed via Open Database License 1.0. (allows sub-licensing).
   See: https://opendatacommons.org/licenses/dbcl/1.0/</p>
     </div>
@@ -131,7 +117,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lee.potatoblight</span><span class="op">)</span></span></span>
@@ -164,7 +150,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         <span class="fu"><a href="https://rdrr.io/r/base/rep.html" class="external-link">rep</a></span><span class="op">(</span><span class="fl">0</span>,<span class="fl">5</span><span class="op">)</span>,<span class="fl">1</span>,<span class="fl">1</span>,<span class="fl">1</span>,<span class="fl">1</span>,<span class="fl">1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">y</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">date</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">y</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">date</span>,</span></span>
 <span class="r-in"><span>        ylab<span class="op">=</span><span class="st">"Year of testing"</span>, <span class="co"># unknown aspect</span></span></span>
 <span class="r-in"><span>        layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">10</span>,<span class="fl">11</span><span class="op">)</span>,skip<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/logical.html" class="external-link">as.logical</a></span><span class="op">(</span><span class="va">skp</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"lee.potatoblight - maps of blight resistance over time"</span><span class="op">)</span></span></span>
@@ -177,10 +163,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"lee.potatoblight 1983"</span>, as.table<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>       auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">5</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>       scales<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>alternating<span class="op">=</span><span class="cn">FALSE</span>, x<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>rot<span class="op">=</span><span class="fl">90</span>, cex<span class="op">=</span><span class="fl">.7</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -189,14 +175,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/lehmann.millet.uniformity.html b/reference/lehmann.millet.uniformity.html
index 7188e184..09561bae 100644
--- a/reference/lehmann.millet.uniformity.html
+++ b/reference/lehmann.millet.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of millet in India, 3 years on same land."><title>Uniformity trial of millet in India — lehmann.millet.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of millet in India — lehmann.millet.uniformity"><meta property="og:description" content="Uniformity trial of millet in India, 3 years on same land."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of millet in India — lehmann.millet.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of millet in India — lehmann.millet.uniformity"><meta name="description" content="Uniformity trial of millet in India, 3 years on same land."><meta property="og:description" content="Uniformity trial of millet in India, 3 years on same land."><meta property="og:image" content="/logo.png"></head><body>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of millet in India</h1>
-      
+
       <div class="d-none name"><code>lehmann.millet.uniformity.Rd</code></div>
     </div>
 
@@ -80,11 +66,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>total</code></dt>
 <dd><p>total crop yield (pounds)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiment farm near Bangalore. The plots are 1/10 acre, each 50 links
   wide and 200 links long. [6th report, p. 2]. The middle part of the
@@ -94,12 +80,12 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   "A part of the dry lands nearest the tank, which is not quite as
   uniform as the remainder, is already excluded from the experimental ground proper".</p>
 <p>The 7th report:
-  P. 12 (pdf page 233) has grain/straw yield for 1905.</p>   
+  P. 12 (pdf page 233) has grain/straw yield for 1905.</p>
 <p>The 9th report:
   P. 1-10 has comments.
   P. 36-39 have data: Table 1 has grain yield, table 2 total yield of
   grain and straw. Columns are, left-right, A-F. Rows are, top-bottom,
-  1-22.</p>  
+  1-22.</p>
 <p>The season of 1906 was abnormally wet compared with 1905 and 1907. [9th report]</p>
 <p>Field width: 6 plots * 200 links</p>
 <p>Field length: 22 plots * 50 links</p>
@@ -109,7 +95,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Lehmann, A.
   Ninth Annual Report of the Agricultural Chemist For the Year 1907-08.
   Department of Agriculture, Mysore State.
-  [2nd-9th] Annual Report of the Agricultural Chemist. 
+  [2nd-9th] Annual Report of the Agricultural Chemist.
   https://books.google.com/books?id=u_dHAAAAYAAJ</p>
     </div>
     <div class="section level2">
@@ -120,7 +106,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lehmann.millet.uniformity</span><span class="op">)</span></span></span>
@@ -128,21 +114,21 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">year</span> <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">year</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">range</span><span class="op">*</span><span class="va">plot</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">range</span><span class="op">*</span><span class="va">plot</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">22</span><span class="op">*</span><span class="fl">50</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">200</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"lehmann.millet.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">total</span> <span class="op">~</span> <span class="va">range</span><span class="op">*</span><span class="va">plot</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">total</span> <span class="op">~</span> <span class="va">range</span><span class="op">*</span><span class="va">plot</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">22</span><span class="op">*</span><span class="fl">50</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">200</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"lehmann.millet.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># libs(dplyr)</span></span></span>
 <span class="r-in"><span>  <span class="co"># group_by(dat, year) </span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/lehner.soybeanmold.html b/reference/lehner.soybeanmold.html
index 90e918ea..91d477dd 100644
--- a/reference/lehner.soybeanmold.html
+++ b/reference/lehner.soybeanmold.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Yield, white mold, and sclerotia for soybeans in Brazil</h1>
-      
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       <div class="d-none name"><code>lehner.soybeanmold.Rd</code></div>
     </div>
 
@@ -92,7 +78,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>sclerotia</code></dt>
 <dd><p>weight of sclerotia g/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lehner.soybeanmold</span><span class="op">)</span></span></span>
@@ -186,10 +172,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>           data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -198,14 +184,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index c8b25ed7..30eb58e1 100644
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@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sorghum</h1>
-      
+
       <div class="d-none name"><code>lessman.sorghum.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, ounces</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>The uniformity trial was conducted at the Agronomy Farm at Ames, Iowa,
   in 1959.  The field was planted to grain sorghum in rows spaces 40
   inches apart, thinned to a stand of three inches between plants.  The
@@ -88,7 +74,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   moisture before weighing. Weights are ounces.  Average yield for the
   field was 95.3 bu/ac.</p>
 <p>Field width: 48 rows * 40 inches / 12in/ft = 160 feet</p>
-<p>Field length: 60 plots * 5 feet = 300 feet</p>  
+<p>Field length: 60 plots * 5 feet = 300 feet</p>
 <p>Plot yields from the two outer rows on each side of the field were
   omitted from the analysis.</p>
 <p>CV values from this data do not quite match Lessman's value.  The
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -119,7 +105,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">lessman.sorghum.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">300</span><span class="op">/</span><span class="fl">160</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"lessman.sorghum.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -138,10 +124,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Lessman said that varying the width of plots did not have an appreciable</span></span></span>
 <span class="r-in"><span>  <span class="co"># effect on CV, and optimal row length was 3.2 basic plots, about 15-20</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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+
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   </body></html>
 
diff --git a/reference/li.millet.uniformity.html b/reference/li.millet.uniformity.html
index 3b511c4a..968f8733 100644
--- a/reference/li.millet.uniformity.html
+++ b/reference/li.millet.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of millet at China in 1934."><title>Uniformity trial of millet — li.millet.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of millet — li.millet.uniformity"><meta property="og:description" content="Uniformity trial of millet at China in 1934."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of millet</h1>
-      
+
       <div class="d-none name"><code>li.millet.uniformity.Rd</code></div>
     </div>
 
@@ -70,13 +56,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (grams)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>Crop date estimated to be 1934.</p>  
+
+<p>Crop date estimated to be 1934.</p>
 <p>Field was 100 ft x 100 ft.  Plots were 15 feet long by 1 foot wide.</p>
 <p>Field width: 100 plots * 1 foot = 100 feet</p>
 <p>Field length: 6 plots * 15 feet = 100 feet</p>
@@ -94,7 +80,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -104,14 +90,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># matches Li et al.</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">100</span><span class="op">/</span><span class="fl">100</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"li.millet.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/libs.html b/reference/libs.html
index 071891e2..4cef112e 100644
--- a/reference/libs.html
+++ b/reference/libs.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content='Install and load packages "on the fly".'><title>Load multiple packages and install if needed — libs • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Load multiple packages and install if needed — libs"><meta property="og:description" content='Install and load packages "on the fly".'><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Load multiple packages and install if needed</h1>
-      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/HEAD/R/libs.R" class="external-link"><code>R/libs.R</code></a></small>
+      <small class="dont-index">Source: <a href="https://github.com/kwstat/agridat/blob/main/R/libs.R" class="external-link"><code>R/libs.R</code></a></small>
       <div class="d-none name"><code>libs.Rd</code></div>
     </div>
 
@@ -65,15 +51,15 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
-    <dl><dt>...</dt>
+
+
+<dl><dt id="arg--">...<a class="anchor" aria-label="anchor" href="#arg--"></a></dt>
 <dd><p>Comma-separated unquoted package names</p></dd>
 
 </dl></div>
     <div class="section level2">
     <h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
-    
-
-<p>None</p>
+    <p>None</p>
     </div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -93,12 +79,12 @@ <h2 id="author">Author<a class="anchor" aria-label="anchor" href="#author"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="fu">libs</span><span class="op">(</span><span class="va">dplyr</span>,<span class="va">reshape2</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -107,14 +93,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/lillemo.wheat.html b/reference/lillemo.wheat.html
index db398721..787812e7 100644
--- a/reference/lillemo.wheat.html
+++ b/reference/lillemo.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat susceptibile to powdery mildew</h1>
-      
+
       <div class="d-none name"><code>lillemo.wheat.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>scale</code></dt>
 <dd><p>scale used for score</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The data are means across reps of the original scores.  Lower scores
   indicate better resistance to mildew.</p>
@@ -101,13 +87,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   data table being rounded to 1 decimal place.  For example, environment
   'Aa03' had 3 reps and so the mean for genotype 1 was probably 16.333,
   not 16.3.</p>
-  
+
 <p>Used with permission of Morten Lillemo.</p>
 <p>Electronic data supplied by Miroslav Zoric.</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    
+
 
 <p>Morten Lillemo, Ravi Sing, Maarten van Ginkel. (2011).
   Identification of Stable Resistance to Powdery Mildew in Wheat Based
@@ -122,7 +108,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lillemo.wheat</span><span class="op">)</span></span></span>
@@ -201,10 +187,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># libs(phenability)</span></span></span>
 <span class="r-in"><span>  <span class="co"># nahu(datm)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -213,14 +199,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
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index 480ae335..00085e2c 100644
--- a/reference/lin.superiority.html
+++ b/reference/lin.superiority.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of 33 barley genotypes in 12 locations"><title>Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority"><meta property="og:description" content="Multi-environment trial of 33 barley genotypes in 12 locations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority"><meta name="description" content="Multi-environment trial of 33 barley genotypes in 12 locations"><meta property="og:description" content="Multi-environment trial of 33 barley genotypes in 12 locations"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of 33 barley genotypes in 12 locations</h1>
-      
+
       <div class="d-none name"><code>lin.superiority.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (kg/ha)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -108,10 +94,9 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
-<span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lin.superiority</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">lin.superiority</span></span></span>
 <span class="r-in"><span></span></span>
@@ -149,10 +134,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">locmean</span><span class="op">|</span><span class="va">gen</span>, data<span class="op">=</span><span class="va">dat</span>,</span></span>
 <span class="r-in"><span>         type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'p'</span>,<span class="st">'r'</span><span class="op">)</span>, as.table<span class="op">=</span><span class="cn">TRUE</span>, pch<span class="op">=</span><span class="fl">19</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -161,14 +146,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/lin.unbalanced.html b/reference/lin.unbalanced.html
index b25e8a59..415f00ab 100644
--- a/reference/lin.unbalanced.html
+++ b/reference/lin.unbalanced.html
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of 33 barley genotypes in 18 locations</h1>
-      
+
       <div class="d-none name"><code>lin.unbalanced.Rd</code></div>
     </div>
 
@@ -77,14 +63,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>region</code></dt>
 <dd><p>region</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Yield of six-row barley from the 1986 Eastern Cooperative trial</p>
-<p>The named cultivars Bruce, Laurier, Leger are checks, while the other cultivars were tests. Cultivar names use the following codes.
-  "A" is for Atlantic-Quebec. "O" is for "Ontario".
-  "S" is second-year. "T" is third-year.</p>
+<p>The named cultivars Bruce, Laurier, Leger are checks, while the other
+  cultivars were tests. Cultivar names use the following codes:</p>
+<p>"A" is for Atlantic-Quebec. "O" is for "Ontario".</p>
+<p>"S" is second-year. "T" is third-year.</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
@@ -101,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lin.unbalanced</span><span class="op">)</span></span></span>
@@ -129,10 +116,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="op">}</span><span class="op">)</span><span class="op">/</span><span class="fl">1000</span></span></span>
 <span class="r-in"><span><span class="va">P</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/sort.html" class="external-link">sort</a></span><span class="op">(</span><span class="va">P</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="va">P</span><span class="op">)</span> <span class="co"># match Lin &amp; Binns 1988 table 2, column P</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +128,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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@@ -1,56 +1,42 @@
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat in Switzerland</h1>
-      
+
       <div class="d-none name"><code>linder.wheat.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, in 10 kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -112,7 +98,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -121,14 +107,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/little.splitblock.html b/reference/little.splitblock.html
index 1bcc5770..e7604133 100644
--- a/reference/little.splitblock.html
+++ b/reference/little.splitblock.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Split-block experiment of sugar beets."><title>Split-block experiment of sugar beets — little.splitblock • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-block experiment of sugar beets — little.splitblock"><meta property="og:description" content="Split-block experiment of sugar beets."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Split-block experiment of sugar beets — little.splitblock • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-block experiment of sugar beets — little.splitblock"><meta name="description" content="Split-block experiment of sugar beets."><meta property="og:description" content="Split-block experiment of sugar beets."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-block experiment of sugar beets</h1>
-      
+
       <div class="d-none name"><code>little.splitblock.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">little.splitblock</span><span class="op">)</span></span></span>
@@ -120,7 +106,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Layout shown by Little figure 10.2</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">col</span>, col<span class="op">=</span><span class="va">nitro</span>, cex<span class="op">=</span><span class="fl">1</span>, num<span class="op">=</span><span class="va">harvest</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"little.splitblock"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -140,10 +126,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>            <span class="fu">Error</span><span class="op">(</span><span class="va">R</span><span class="op">:</span><span class="va">C</span><span class="op">:</span><span class="va">N</span> <span class="op">+</span> <span class="va">C</span><span class="op">:</span><span class="va">H</span> <span class="op">+</span> <span class="va">C</span><span class="op">:</span><span class="va">N</span><span class="op">:</span><span class="va">H</span><span class="op">)</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -152,14 +138,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/loesell.bean.uniformity.html b/reference/loesell.bean.uniformity.html
index 611cbc0a..1fd38891 100644
--- a/reference/loesell.bean.uniformity.html
+++ b/reference/loesell.bean.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of white pea beans</h1>
-      
+
       <div class="d-none name"><code>loesell.bean.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -82,7 +68,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   acres. Beans were planted in rows 28 inches apart on 15 Jun
   1932. Plants spaced 1 to 2 inches apart. After planting, an area 210
   ft x 210 feet. This area was divided into 21 columns, each 10 foot
-  wide, and each containing90 rows.</p>  
+  wide, and each containing90 rows.</p>
 <p>Field length: 90 rows * 28 inches = 210 feet.</p>
 <p>Field width: 21 series * 10 feet = 210 feet.</p>
 <p>Author's conclusion: Increasing the size of the plot by increasing its
@@ -92,7 +78,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    <p>Loesell, Clarence (1936). 
+    <p>Loesell, Clarence (1936).
   Size of plot &amp; number of replications necessary for varietal trials
   with white pea beans.
   PhD Thesis, Michigan State. Table 3, p. 9-10.
@@ -105,18 +91,18 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">loesell.bean.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">loesell.bean.uniformity</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/desplot/" class="external-link">desplot</a></span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"loesell.bean.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -125,14 +111,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/lonnquist.maize.html b/reference/lonnquist.maize.html
index dbdebceb..2341991c 100644
--- a/reference/lonnquist.maize.html
+++ b/reference/lonnquist.maize.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize, half diallel</h1>
-      
+
       <div class="d-none name"><code>lonnquist.maize.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Twelve hybrids were selfed/crossed in a half-diallel design.
   The data here are means adjusted for block effects.
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lonnquist.maize</span><span class="op">)</span></span></span>
@@ -162,7 +148,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">d2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels</a></span><span class="op">(</span><span class="va">d2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">asreml</span>,<span class="va">lucid</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span><span class="op">~</span> <span class="fl">1</span>, data<span class="op">=</span><span class="va">d2</span>, random <span class="op">=</span> <span class="op">~</span> <span class="va">p1</span> <span class="op">+</span> <span class="fu">and</span><span class="op">(</span><span class="va">p2</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##     effect component std.error z.ratio      con</span></span></span>
 <span class="r-in"><span>    <span class="co">##  p1!p1.var     3.865     3.774     1   Positive</span></span></span>
 <span class="r-in"><span>    <span class="co">## R!variance    15.93      5.817     2.7 Positive</span></span></span>
@@ -173,10 +159,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Matches Gardner 1966, Table 5, Griffing method</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -185,14 +171,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/lord.rice.uniformity.html b/reference/lord.rice.uniformity.html
index 17d48501..20665937 100644
--- a/reference/lord.rice.uniformity.html
+++ b/reference/lord.rice.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of rice in Ceylon, 1929."><title>Uniformity trial of rice — lord.rice.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of rice — lord.rice.uniformity"><meta property="og:description" content="Uniformity trial of rice in Ceylon, 1929."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of rice</h1>
-      
+
       <div class="d-none name"><code>lord.rice.uniformity.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>straw</code></dt>
 <dd><p>straw weight, pounds per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -91,7 +77,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>Fields 10-14 were on one side of a drain, and fields 26-28 on the
   other side.</p>
 <p>Each field was surrounded by a bund. Plots next to the bunds had higher
-  yields.</p>  
+  yields.</p>
 <p>Field width: 5 plots * 10 feet = 50 feet</p>
 <p>Field length: 14 plots * 10 feet = 140 feet</p>
 <p>Conclusions: "It would appear that plots of about 1/87 acre are the most effective."</p>
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lord.rice.uniformity</span><span class="op">)</span></span></span>
@@ -137,7 +123,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Heatmaps</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">field</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">field</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">140</span><span class="op">/</span><span class="fl">50</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"lord.rice.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -145,10 +131,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># bivariate scatterplots  </span></span></span>
 <span class="r-in"><span><span class="co"># xyplot(grain ~ straw|field, dat)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -157,14 +143,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/love.cotton.uniformity.html b/reference/love.cotton.uniformity.html
index 08ece2be..62e44ca9 100644
--- a/reference/love.cotton.uniformity.html
+++ b/reference/love.cotton.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of cotton"><title>Uniformity trial of cotton — love.cotton.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of cotton — love.cotton.uniformity"><meta property="og:description" content="Uniformity trial of cotton"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of cotton — love.cotton.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of cotton — love.cotton.uniformity"><meta name="description" content="Uniformity trial of cotton"><meta property="og:description" content="Uniformity trial of cotton"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton</h1>
-      
+
       <div class="d-none name"><code>love.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -74,15 +60,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, unknown units</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Within each 100-foot row, the first 20 feet were harvested as a single plot,
   and then the rest of the row was harvested in 5-foot lengths.</p>
 <p>Field width: 17 plots. First plot is 20 foot segment, the remaining
-  are 5 foot segments.</p>  
-<p>Field length: 10 plots. No distance between the rows is given.</p>  
+  are 5 foot segments.</p>
+<p>Field length: 10 plots. No distance between the rows is given.</p>
 <p>Crop location not certain.  However, Love &amp; Reisner (2012) mentions a
   cotton "blank test" of 200 plots at Nanking in 1929-1930.</p>
 <p>Neither document mentions the weight unit.</p>
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -119,14 +105,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">love.cotton.uniformity</span>, <span class="va">col</span> <span class="op">&gt;</span> <span class="fl">1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">20</span><span class="op">/</span><span class="fl">80</span>, <span class="co"># just a guess</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"love.cotton.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/lu.stability.html b/reference/lu.stability.html
index f471adc9..b863e709 100644
--- a/reference/lu.stability.html
+++ b/reference/lu.stability.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize, to illustrate stability statistics</h1>
-      
+
       <div class="d-none name"><code>lu.stability.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block factor, 4 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -92,8 +78,8 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
-  
+
+
 <p>Hsiu Ying Lu. 1995.
   PC-SAS Program for Estimating Huehn's Nonparametric Stability
   Statistics.
@@ -106,7 +92,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lu.stability</span><span class="op">)</span></span></span>
@@ -157,10 +143,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/base/print.html" class="external-link">print</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m7l</span><span class="op">)</span><span class="op">)</span> </span></span>
 <span class="r-in"><span>  <span class="op">}</span> <span class="co"># Match Hwu table 7.</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span> <span class="co"># dontrun</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># } # dontrun</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -169,14 +155,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/lucas.switchback.html b/reference/lucas.switchback.html
index e06c6b18..0977d84f 100644
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+++ b/reference/lucas.switchback.html
@@ -1,56 +1,42 @@
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-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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-</li>
-<li class="nav-item">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Switchback experiment on dairy cattle, milk yield for 3 treatments</h1>
-      
+
       <div class="d-none name"><code>lucas.switchback.Rd</code></div>
     </div>
 
@@ -80,12 +66,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block factor</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Lucas says
   "because no data from feeding trials employing the present designs are yet available, uniformity data will be used".</p>
 <p>Six cows were started together in block 1, then three cows in block 2
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -139,10 +125,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/coef.html" class="external-link">coef</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span> <span class="co"># trtT2 and trtT3 match Sanders table 3 trt diffs</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/lyon.potato.uniformity.html b/reference/lyon.potato.uniformity.html
index af0ffc72..72c09d53 100644
--- a/reference/lyon.potato.uniformity.html
+++ b/reference/lyon.potato.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of potatoes at Nebraska Experiment Station, 1909."><title>Uniformity trial of potatoes — lyon.potato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of potatoes — lyon.potato.uniformity"><meta property="og:description" content="Uniformity trial of potatoes at Nebraska Experiment Station, 1909."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of potatoes — lyon.potato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of potatoes — lyon.potato.uniformity"><meta name="description" content="Uniformity trial of potatoes at Nebraska Experiment Station, 1909."><meta property="og:description" content="Uniformity trial of potatoes at Nebraska Experiment Station, 1909."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of potatoes</h1>
-      
+
       <div class="d-none name"><code>lyon.potato.uniformity.Rd</code></div>
     </div>
 
@@ -70,12 +56,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>In 1909, potatoes were harvested from uniform land at Nebraska
-  Experiment Station.</p>  
+  Experiment Station.</p>
 <p>There were 34 rows, 34 inches apart.
   Lyon, page 97 says "He harvested each row in six sections,
   each of which was seventy-two feet and seven inches long."
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -113,14 +99,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/sum.html" class="external-link">sum</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">72</span><span class="op">*</span><span class="fl">96</span><span class="op">)</span> <span class="co"># 0.11</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">96</span><span class="op">/</span><span class="fl">72</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"lyon.potato.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/lyons.wheat.html b/reference/lyons.wheat.html
index d38ee287..f9c86366 100644
--- a/reference/lyons.wheat.html
+++ b/reference/lyons.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of winter wheat at 12 sites in 4 years.</h1>
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+
       <div class="d-none name"><code>lyons.wheat.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (kg)</p></dd>
 
-  
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 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -89,7 +75,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">lyons.wheat</span><span class="op">)</span></span></span>
@@ -99,10 +85,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">year</span><span class="op">)</span>, <span class="va">dat</span>, group<span class="op">=</span><span class="va">loc</span>,</span></span>
 <span class="r-in"><span>  main<span class="op">=</span><span class="st">"lyons.wheat"</span>,</span></span>
 <span class="r-in"><span>  auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">4</span><span class="op">)</span>, type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'p'</span>,<span class="st">'l'</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -111,14 +97,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index 62e3f2a2..90ea7062 100644
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+++ b/reference/magistad.pineapple.uniformity.html
@@ -1,56 +1,42 @@
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of pineapple</h1>
-      
+
       <div class="d-none name"><code>magistad.pineapple.uniformity.Rd</code></div>
     </div>
 
@@ -83,11 +69,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>weight of fruits, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Field 19. Kunia. Harvested 1932.</p>
 <p>"In this field, harvested in 1932, there were four rows per bed. A 300-foot bed was divided into four equal parts to form plats 1, 2, 3, and 4.  The third [sic, second] bed from this was similarly divided to form plats 5 to 8, inclusive.  In the same manner plats 9 to 24 were formed. In this way 24 plats each 75 feet long and 1 bed wide were formed."
@@ -118,7 +104,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>O. C. Magistad &amp; C. A. Farden (1934).
   Experimental Error In Field Experiments With Pineapples.
-  Journal of the American Society of Agronomy, 26, 631--643.
+  Journal of the American Society of Agronomy, 26, 631–643.
   https://doi.org/10.2134/agronj1934.00021962002600080001x</p>
     </div>
     <div class="section level2">
@@ -128,7 +114,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -146,27 +132,27 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 4    82 220.7500 1264.500</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">field</span><span class="op">==</span><span class="fl">19</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">300</span><span class="op">/</span><span class="fl">39</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"magistad.pineapple.uniformity - field 19"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">field</span><span class="op">==</span><span class="fl">82</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">228</span><span class="op">/</span><span class="fl">176</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"magistad.pineapple.uniformity - field 82"</span><span class="op">)</span>          </span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">field</span><span class="op">==</span><span class="fl">21</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">300</span><span class="op">/</span><span class="fl">97.5</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"magistad.pineapple.uniformity - field 21"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">weight</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">field</span><span class="op">==</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1200</span><span class="op">/</span><span class="fl">96</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"magistad.pineapple.uniformity - field 1"</span><span class="op">)</span>          </span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -175,14 +161,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/masood.rice.uniformity.html b/reference/masood.rice.uniformity.html
index ba17b565..f7b01c6d 100644
--- a/reference/masood.rice.uniformity.html
+++ b/reference/masood.rice.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of rice</h1>
-      
+
       <div class="d-none name"><code>masood.rice.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/m^2</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,9 +74,9 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   paper and seems to refer to the same data.  The results may simply
   differ by a scaling factor.</p>
 <p>The yield values in Masood are labeled as "gm^2" (gram per sq meter),
-  but this would be extremely low. Probably should be "kgm^2".</p>  
+  but this would be extremely low. Probably should be "kgm^2".</p>
 <p>Field length: 24 plots x 1m = 24m.</p>
-<p>Field width: 12 plots x 1m = 12m.</p>  
+<p>Field width: 12 plots x 1m = 12m.</p>
 <p>Used with permission of Asif Masood.</p>
     </div>
     <div class="section level2">
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -118,7 +104,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">masood.rice.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">24</span><span class="op">/</span><span class="fl">12</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"masood.rice.uniformity - yield heatmap"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -129,10 +115,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>              main<span class="op">=</span><span class="st">"masood.rice.uniformity"</span>,</span></span>
 <span class="r-in"><span>              col<span class="op">=</span><span class="st">"red"</span><span class="op">)</span> <span class="co"># CVs match Table 3</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/mcclelland.corn.uniformity.html b/reference/mcclelland.corn.uniformity.html
index bc8e821e..41e50625 100644
--- a/reference/mcclelland.corn.uniformity.html
+++ b/reference/mcclelland.corn.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of corn at Arkansas Experiment Station, 1925."><title>Uniformity trial of corn — mcclelland.corn.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of corn — mcclelland.corn.uniformity"><meta property="og:description" content="Uniformity trial of corn at Arkansas Experiment Station, 1925."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of corn — mcclelland.corn.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of corn — mcclelland.corn.uniformity"><meta name="description" content="Uniformity trial of corn at Arkansas Experiment Station, 1925."><meta property="og:description" content="Uniformity trial of corn at Arkansas Experiment Station, 1925."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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       <span class="navbar-toggler-icon"></span>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
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-</li>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of corn</h1>
-      
+
       <div class="d-none name"><code>mcclelland.corn.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>A uniformity trial of corn in 1925 at the Arkansas Experimental
   Station.
   Unit of measure not given.</p>
@@ -109,7 +95,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -121,15 +107,15 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># 0.67449 * sd(dat$yield)/mean(dat$yield) # 11.2</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">219</span><span class="op">*</span><span class="fl">44</span><span class="op">/</span><span class="fl">12</span><span class="op">)</span><span class="op">/</span><span class="fl">132</span>, <span class="co"># true aspect, 219 rows * 44 inches x 132 feet</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"mcclelland.corn.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -138,14 +124,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/mcconway.turnip.html b/reference/mcconway.turnip.html
index 230de9a4..cc83b359 100644
--- a/reference/mcconway.turnip.html
+++ b/reference/mcconway.turnip.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of turnips</h1>
-      
+
       <div class="d-none name"><code>mcconway.turnip.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -98,21 +84,21 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Michael Berthold, D. J. Hand.
   Intelligent data analysis: an introduction, 1998.
-  Pages 75--82.</p>
+  Pages 75–82.</p>
 <p>Lee, C.J. and O Donnell, M. and O Neill, M. (2008).
   Statistical analysis of field trials with changing treatment
   variance.
-  Agronomy Journal, 100, 484--489.</p>
+  Agronomy Journal, 100, 484–489.</p>
 <p>Piepho, H.P. (2009),
   Data transformation in statistical analysis of field trials
   with changing treatment variance.
-  Agronomy Journal, 101, 865--869.
+  Agronomy Journal, 101, 865–869.
   https://doi.org/10.2134/agronj2008.0226x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mcconway.turnip</span><span class="op">)</span></span></span>
@@ -164,10 +150,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m4</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span> <span class="va">yield</span><span class="op">^</span><span class="fl">.235</span> <span class="op">~</span> <span class="va">gen</span> <span class="op">*</span> <span class="va">date</span> <span class="op">*</span> <span class="va">densf</span> <span class="op">+</span> <span class="va">block</span>, <span class="va">dat</span> <span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m4</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -176,14 +162,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/mckinstry.cotton.uniformity.html b/reference/mckinstry.cotton.uniformity.html
index f52fe176..9461b891 100644
--- a/reference/mckinstry.cotton.uniformity.html
+++ b/reference/mckinstry.cotton.uniformity.html
@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton in South Rhodesia</h1>
-      
+
       <div class="d-none name"><code>mckinstry.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot, ounces</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>A uniformity trial of cotton from an experiment in Gatooma, South
 Rhodesia. Conducted by the Empire Cotton Growing Corporation. Planted
@@ -113,13 +99,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">mckinstry.cotton.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">25</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">24</span><span class="op">*</span><span class="fl">3.5</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"mckinstry.cotton.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-plt img"><img src="mckinstry.cotton.uniformity-1.png" alt="" width="700" height="433"></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -128,14 +114,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/mcleod.barley.html b/reference/mcleod.barley.html
index e3fc2230..3fd59551 100644
--- a/reference/mcleod.barley.html
+++ b/reference/mcleod.barley.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley in South Canterbury with yield and yield components</h1>
-      
+
       <div class="d-none name"><code>mcleod.barley.Rd</code></div>
     </div>
 
@@ -91,7 +77,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield tons/hectare</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -114,7 +100,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -146,10 +132,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       xlab<span class="op">=</span><span class="st">"Nitrogen rate"</span>, ylab<span class="op">=</span><span class="st">"Trait value"</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"mcleod.barley - nitrogen response curves"</span>  <span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -158,14 +144,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/mead.cauliflower.html b/reference/mead.cauliflower.html
index 3a838162..ba9f2e8d 100644
--- a/reference/mead.cauliflower.html
+++ b/reference/mead.cauliflower.html
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       <img src="../logo.png" class="logo" alt=""><h1>Leaves for cauliflower plants at different times</h1>
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+
       <div class="d-none name"><code>mead.cauliflower.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>leaves</code></dt>
 <dd><p>number of leaves</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,7 +81,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mead.cauliflower</span><span class="op">)</span></span></span>
@@ -117,10 +103,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       xlab<span class="op">=</span><span class="st">"degree days"</span>, ylab<span class="op">=</span><span class="st">"Number of leaves"</span>, <span class="op">)</span> <span class="op">+</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">pred</span><span class="op">~</span><span class="va">degdays</span>, data<span class="op">=</span><span class="va">dat</span>, groups<span class="op">=</span><span class="va">year</span>, type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'l'</span><span class="op">)</span>, col<span class="op">=</span><span class="st">"black"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/mead.cowpea.maize.html b/reference/mead.cowpea.maize.html
index b84af30b..87ca8b04 100644
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+++ b/reference/mead.cowpea.maize.html
@@ -1,56 +1,42 @@
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
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-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Intercropping experiment of maize/cowpea</h1>
-      
+
       <div class="d-none name"><code>mead.cowpea.maize.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>myield</code></dt>
 <dd><p>maize yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mead.cowpea.maize</span><span class="op">)</span></span></span>
@@ -153,10 +139,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## maize:cowpea:nitro  6    1.300    0.1400      1.300      -0.033 -0.079</span></span></span>
 <span class="r-in"><span><span class="co">## Residuals          46   16.000    0.6000     14.000      -1.400 -0.460</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -165,14 +151,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/mead.germination.html b/reference/mead.germination.html
index 0f453bf8..5f24e679 100644
--- a/reference/mead.germination.html
+++ b/reference/mead.germination.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Seed germination with different temperatures/concentrations"><title>Seed germination with different temperatures/concentrations — mead.germination • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Seed germination with different temperatures/concentrations — mead.germination"><meta property="og:description" content="Seed germination with different temperatures/concentrations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Seed germination with different temperatures/concentrations — mead.germination • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Seed germination with different temperatures/concentrations — mead.germination"><meta name="description" content="Seed germination with different temperatures/concentrations"><meta property="og:description" content="Seed germination with different temperatures/concentrations"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Seed germination with different temperatures/concentrations</h1>
-      
+
       <div class="d-none name"><code>mead.germination.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>seeds</code></dt>
 <dd><p>number of seeds tested = 50</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -98,7 +84,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -125,10 +111,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Show logit and fitted values.  T2 has highest germination</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">dat</span>, <span class="fu"><a href="https://rdrr.io/r/stats/predict.html" class="external-link">predict</a></span><span class="op">(</span><span class="va">m5</span><span class="op">)</span>, <span class="fu"><a href="https://rdrr.io/r/stats/fitted.values.html" class="external-link">fitted</a></span><span class="op">(</span><span class="va">m5</span><span class="op">)</span><span class="op">)</span>, <span class="va">rep</span><span class="op">==</span><span class="st">"R1"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/mead.lamb.html b/reference/mead.lamb.html
index 55e25cff..5f5b83cc 100644
--- a/reference/mead.lamb.html
+++ b/reference/mead.lamb.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Number of lambs born to 3 breeds on 3 farms</h1>
-      
+
       <div class="d-none name"><code>mead.lamb.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>count of ewes in class</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mead.lamb</span><span class="op">)</span></span></span>
@@ -176,10 +162,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># residual_type="rstandard", keep_aspect=FALSE)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -188,14 +174,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/mead.strawberry.html b/reference/mead.strawberry.html
index 065d6a55..bac26e82 100644
--- a/reference/mead.strawberry.html
+++ b/reference/mead.strawberry.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of strawberry</h1>
-      
+
       <div class="d-none name"><code>mead.strawberry.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,12 +85,12 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 <p>Julian Besag and D Higdon, 1999.
   Bayesian Analysis of Agricultural Field Experiments,
   <em>Journal of the Royal Statistical Society: Series B (Statistical
-    Methodology)</em>,61, 691--746. Table 4.</p>
+    Methodology)</em>,61, 691–746. Table 4.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mead.strawberry</span><span class="op">)</span></span></span>
@@ -113,14 +99,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>              <span class="st">"S1"</span>,<span class="st">"S2"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        text<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">1</span>, out1<span class="op">=</span><span class="va">block</span>, out2<span class="op">=</span><span class="va">sub</span>, <span class="co"># unknown aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"mead.strawberry"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -129,14 +115,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/mead.turnip.html b/reference/mead.turnip.html
index 88213b47..be6966ca 100644
--- a/reference/mead.turnip.html
+++ b/reference/mead.turnip.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Density/spacing experiment for turnips in 3 blocks."><title>Density/spacing experiment for turnips in 3 blocks. — mead.turnip • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Density/spacing experiment for turnips in 3 blocks. — mead.turnip"><meta property="og:description" content="Density/spacing experiment for turnips in 3 blocks."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Density/spacing experiment for turnips in 3 blocks. — mead.turnip • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Density/spacing experiment for turnips in 3 blocks. — mead.turnip"><meta name="description" content="Density/spacing experiment for turnips in 3 blocks."><meta property="og:description" content="Density/spacing experiment for turnips in 3 blocks."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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       <span class="navbar-toggler-icon"></span>
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Density/spacing experiment for turnips in 3 blocks.</h1>
-      
+
       <div class="d-none name"><code>mead.turnip.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>density</code></dt>
 <dd><p>density of seeds, pounds/acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mead.turnip</span><span class="op">)</span></span></span>
@@ -120,10 +106,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"mead.turnip - log(yield) for each density"</span>,</span></span>
 <span class="r-in"><span>       group<span class="op">=</span><span class="va">ratef</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -132,14 +118,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/mercer.mangold.uniformity.html b/reference/mercer.mangold.uniformity.html
index d85b2390..26597ecc 100644
--- a/reference/mercer.mangold.uniformity.html
+++ b/reference/mercer.mangold.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of mangolds</h1>
-      
+
       <div class="d-none name"><code>mercer.mangold.uniformity.Rd</code></div>
     </div>
 
@@ -80,11 +66,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>leaves</code></dt>
 <dd><p>leaf yields, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>Grown in 1910.</p>  
+    <p>Grown in 1910.</p>
 <p>Each plot was 3 drills, each drill being 2.4 feet wide.
   Plots were 1/200 acres, 7.2 feet by 30.25 feet long
   The "length of the plots runs with the horizontal lines of figures [in
@@ -103,7 +89,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science, 462, 2119--2143.
+    Engineering Science, 462, 2119–2143.
     https://doi.org/10.1098/rspa.2006.1667</p>
 <p>Theodor Roemer (1920).
   Der Feldversuch. Page 64, table 5.</p>
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -119,22 +105,22 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">mercer.mangold.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">leaves</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">leaves</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">145</span><span class="op">/</span><span class="fl">302</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"mercer.mangold.uniformity - leaves"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">roots</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">roots</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">145</span><span class="op">/</span><span class="fl">302</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"mercer.mangold.uniformity - roots"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">roots</span><span class="op">~</span><span class="va">leaves</span>, data<span class="op">=</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -143,14 +129,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 45b075a3..7f9346c8 100644
--- a/reference/mercer.wheat.uniformity.html
+++ b/reference/mercer.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>mercer.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>straw</code></dt>
 <dd><p>straw yield, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -82,9 +68,9 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   seemingly uniform area of 1 acre was harvested in separate plots, each
   1/500th acre in size.  The grain and straw from each plot was weighed
   separately.</p>
-<p>McCullagh gives more information about the plot size.</p>  
+<p>McCullagh gives more information about the plot size.</p>
 <p>Field width: 25 plots * 8 ft = 200 ft</p>
-<p>Field length: 20 plots * 10.82 ft = 216 ft</p>  
+<p>Field length: 20 plots * 10.82 ft = 216 ft</p>
 <p>D. G. Rossiter (2014) uses this data for an extensive data analysis
   tutorial.</p>
     </div>
@@ -97,12 +83,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   <em>Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science</em>, 462, 2119--2143.
+    Engineering Science</em>, 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
 <p>Theodor Roemer (1920).
   Der Feldversuch. Page 65, table 6.</p>
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 <p>G. A. Baker (1941).
   Fundamental Distribution of Errors for Agricultural Field Trials.
   <em>National Mathematics Magazine</em>, 16, 7-19.
-  https://doi.org/10.2307/3028105</p>  
+  https://doi.org/10.2307/3028105</p>
 <p>The 'spdep' package includes the grain yields
   (only) and spatial positions of plot centres in its example dataset
   'wheat'.</p>
@@ -121,7 +107,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">mercer.wheat.uniformity</span><span class="op">)</span></span></span>
@@ -129,7 +115,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">216</span><span class="op">/</span><span class="fl">200</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"mercer.wheat.uniformity - grain yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -162,14 +148,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># variogram</span></span></span>
 <span class="r-in"><span>  <span class="co"># Need gstat::variogram to get the right method</span></span></span>
-<span class="r-in"><span>  <span class="va">vg</span> <span class="op">&lt;-</span> <span class="fu">gstat</span><span class="fu">::</span><span class="fu"><a href="https://rdrr.io/pkg/gstat/man/variogram.html" class="external-link">variogram</a></span><span class="op">(</span><span class="va">grain</span> <span class="op">~</span> <span class="fl">1</span>, <span class="va">dat.sp</span>, cutoff <span class="op">=</span> <span class="va">plot.wid</span> <span class="op">*</span> <span class="fl">10</span>, width <span class="op">=</span> <span class="va">plot.wid</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="va">vg</span> <span class="op">&lt;-</span> <span class="fu">gstat</span><span class="fu">::</span><span class="fu"><a href="https://r-spatial.github.io/gstat/reference/variogram.html" class="external-link">variogram</a></span><span class="op">(</span><span class="va">grain</span> <span class="op">~</span> <span class="fl">1</span>, <span class="va">dat.sp</span>, cutoff <span class="op">=</span> <span class="va">plot.wid</span> <span class="op">*</span> <span class="fl">10</span>, width <span class="op">=</span> <span class="va">plot.wid</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">vg</span>, plot.numbers <span class="op">=</span> <span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"mercer.wheat.uniformity - variogram"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -178,14 +164,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Biomass of 3 crops in Greece</h1>
-      
+
       <div class="d-none name"><code>miguez.biomass.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield tons/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">miguez.biomass</span><span class="op">)</span></span></span>
@@ -163,10 +149,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"miguez.biomass - observed/predicted data"</span><span class="op">)</span> <span class="co"># only works with groupedData object</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -175,14 +161,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/minnesota.barley.weather.html b/reference/minnesota.barley.weather.html
index e08fb88b..7e461139 100644
--- a/reference/minnesota.barley.weather.html
+++ b/reference/minnesota.barley.weather.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="This is monthly weather summaries for the 6 sites where barley yield
-  trials were conducted."><title>Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather"><meta property="og:description" content="This is monthly weather summaries for the 6 sites where barley yield
-  trials were conducted."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather"><meta name="description" content="This is monthly weather summaries for the 6 sites where barley yield
+  trials were conducted."><meta property="og:description" content="This is monthly weather summaries for the 6 sites where barley yield
+  trials were conducted."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Monthly weather at 6 sites in Minnesota 1927-1936.</h1>
-      
+
       <div class="d-none name"><code>minnesota.barley.weather.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>max</code></dt>
 <dd><p>monthly average daily maximum temp, Fahrenheit</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -114,7 +100,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">minnesota.barley.yield</span><span class="op">)</span></span></span>
@@ -164,10 +150,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">foo</span> <span class="op">&lt;-</span> <span class="fu">useOuterStrips</span><span class="op">(</span><span class="va">foo</span>, strip.left <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/strip.default.html" class="external-link">strip.custom</a></span><span class="op">(</span>par.strip.text<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>cex<span class="op">=</span><span class="fl">.7</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">combineLimits</span><span class="op">(</span><span class="va">foo</span>, margin.x<span class="op">=</span><span class="fl">2L</span><span class="op">)</span> <span class="co"># Use a common x axis for all rows</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -176,14 +162,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/minnesota.barley.yield.html b/reference/minnesota.barley.yield.html
index b0d5fd9e..c244db4c 100644
--- a/reference/minnesota.barley.yield.html
+++ b/reference/minnesota.barley.yield.html
@@ -1,104 +1,120 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="This is an expanded version of the barley data that is often
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+  Minnesota during the years 1893-1942.
+  During the early years, the experiments were conducted only at StPaul.
+  By the late 1920s, the experiments had expanded to 6 sites across the
+  state."><meta property="og:description" content="These data come from barley breeding experiments conducted in
+  Minnesota during the years 1893-1942.
+  During the early years, the experiments were conducted only at StPaul.
+  By the late 1920s, the experiments had expanded to 6 sites across the
+  state."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936.</h1>
-      
+
       <div class="d-none name"><code>minnesota.barley.yield.Rd</code></div>
     </div>
 
     <div class="ref-description section level2">
-    <p>This is an expanded version of the barley data that is often
-  used to illustrate dot plots.</p>
+    <p>These data come from barley breeding experiments conducted in
+  Minnesota during the years 1893-1942.
+  During the early years, the experiments were conducted only at StPaul.
+  By the late 1920s, the experiments had expanded to 6 sites across the
+  state.</p>
     </div>
 
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    <p>A data frame with 647 observations on the following 4 variables.</p><dl><dt><code>yield</code></dt>
-<dd><p>yield in bu/ac</p></dd>
+    <p>A data frame with 647 observations on the following 4 variables.</p><dl><dt><code>site</code></dt>
+<dd><p>site factor, 6 levels</p></dd>
+
+    <dt><code>gen_name</code></dt>
+<dd><p>genotype name</p></dd>
 
     <dt><code>gen</code></dt>
-<dd><p>genotype (variety) factor</p></dd>
+<dd><p>genotype (CI cereal introduction ID)</p></dd>
 
     <dt><code>year</code></dt>
 <dd><p>year</p></dd>
 
-    <dt><code>site</code></dt>
-<dd><p>site factor, 6 levels</p></dd>
+    <dt><code>yield</code></dt>
+<dd><p>yield in bu/ac</p></dd>
+
 
-  
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The <code>lattice</code> package contains a smaller version of this data for
   the years 1931 and 1932.</p>
+<p>This is an expanded version of the barley data that is often
+  used to illustrate dot plots.</p>
 <p>The following comments are in reference to the mentioned source
   documents.</p>
-<p>Notes about Immer (1934).</p>
-<p>The University Farm location is at the city of Saint Paul.</p>
+
+<p>—– Notes about Immer (1934) —–</p>
+<p>The University Farm location is at Saint Paul.</p>
 <p>This source provides the yield data for each of the three blocks at
   each location in 1931 and 1932.  The following registration numbers
   and names are given:</p>
-<p></p><table class="table table"><tr><td>C.I. number</td><td>Variety name</td></tr><tr><td>Minn 184</td><td>Manchuria</td></tr><tr><td>Minn 445</td><td>Glabron</td></tr><tr><td>Minn 440</td><td>Svansota</td></tr><tr><td>Minn 447</td><td>Velvet</td></tr><tr><td>Minn 448</td><td>Trebi</td></tr><tr><td>Minn 457</td><td>Manchuria x Smooth Awn</td></tr><tr><td>Minn 462</td><td>Smooth Awn x Manchuria</td></tr><tr><td>Minn 452</td><td>Peatland</td></tr><tr><td>Minn 475</td><td>Svanhals x Lion</td></tr><tr><td>Minn 529</td><td>Wisconsin No 38</td></tr></table><p>Notes about Harlan (1935):</p>
+<p></p><table class="table table"><tr><td>C.I. number</td><td>Variety name</td></tr><tr><td>Minn 184</td><td>Manchuria</td></tr><tr><td>Minn 445</td><td>Glabron</td></tr><tr><td>Minn 440</td><td>Svansota</td></tr><tr><td>Minn 447</td><td>Velvet</td></tr><tr><td>Minn 448</td><td>Trebi</td></tr><tr><td>Minn 457</td><td>Manchuria x Smooth Awn</td></tr><tr><td>Minn 462</td><td>Smooth Awn x Manchuria</td></tr><tr><td>Minn 452</td><td>Peatland</td></tr><tr><td>Minn 475</td><td>Svanhals x Lion</td></tr><tr><td>Minn 529</td><td>Wisconsin No 38</td></tr></table><p>—– Notes from Harlan et al (1925) —–</p>
+<p>The data from these early tests are accurate at some stations, but may
+  have problems at other stations. (p. 14).</p>
+<p>Identification of many varieties is inadequate...the chance of their
+  being incorrectly identified is small...Officials of the StPaul
+  station have expressed a desire that conclusions be drawn from the
+  yields only when the limitations of the earlier experiments are taken
+  into full consideration. (p. 72)</p>
+<p>The Chevalier and Hanna varieties are not well adapted for StPaul
+  (p. 73).</p>
+
+<p>—– Notes from Harlan et al (1929) —–</p>
+
+<p>—– Notes from Harlan et al (1935) —–</p>
 <p>The 1931 yields match the average values of Immer (1934).</p>
 <p>The Minnesota 474 and 475 cultivars are both 'Svanhals x Lion' crosses.</p>
 <p>No yields are reported at Crookston in 1928 because of a crop failure. (Page 20)</p>
 <p>Also, in the report for North Dakota it says
   "the zero yields at Williston, ND in 1931 were caused by drought". (Page 31)</p>
 
-<p>Notes about Wiebe (1940):</p>
+<p>—– Notes from Wiebe et al (1935) —–</p>
+
+<p>—– Notes from Wiebe et al (1940) —–</p>
 <p>The 1932 data generally match the average values from Immer (1934)
   with the following notes.</p>
 <p>The data for Glabron at St Paul in 1932 are missing, but given as 36.8
@@ -111,38 +127,54 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   reported in Immer (1934).</p>
 <p>No yields are reported at Morris in 1933 and 1934, because of a crop
   failure owing to drought.</p>
-<p>Notes about Hayes (1942).</p>
-<p>This sources gives the block-level yield data for 5 cultivars at 4
+
+<p>—– Notes from Hayes (1942) —–</p>
+<p>This source gives the block-level yield data for 5 cultivars at 4
   sites in 1932 and 1935.  Cultivar 'Barbless' is the same as 'Wisconsin
   No38'.</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
-    <p>H V Harlan and P R Cowan and Lucille Reinbach. (1935).
-  <em>Yields of barley varieties in the United States and Canada, 1927-1931</em>.
-  United States Dept of Agriculture.
+
+
+<p>Harry V. Harlan and Mary L. Martini and Merrit N. Pope (1925).
+  Tests of barley varieties in America.
+  United States Department of Agriculture, Department Bulletin 1334.
+  https://archive.org/details/testsofbarleyvar1334harl</p>
+<p>H. V. Harlan and L. H. Newman and Mary L. Martini (1929).
+  Yields of barley in the United States and Canada 1922-1926.
+  United States Department of Agriculture, Technical Bulletin 96.
+  https://handle.nal.usda.gov/10113/CAT86200091</p>
+<p>Harlan, H. V. and Philip Russell Cowan and Lucille Reinbach. (1935).
+  Yields of barley in the United States and Canada 1927-1931.
+  United States Dept of Agriculture, Technical Bulletin 446.
   https://naldc.nal.usda.gov/download/CAT86200440/PDF</p>
-<p>Gustav A. Wiebe, Philip Russell Cowan, Lucille Reinbach-Welch. (1940).
-  <em>Yields of barley varieties in the United States and Canada, 1932-36</em>.
-  United States Dept of Agriculture.
+<p>Wiebe, Gustav A. and Philip Russell Cowan, Lucille Reinbach-Welch. (1940).
+  Yields of barley varieties in the United States and Canada 1932-36.
+  United States Dept of Agriculture, Technical Bulletin 735.
   https://books.google.com/books?id=OUfxLocnpKkC&amp;pg=PA19</p>
+<p>Wiebe, Gustav A. and Philip Russell Cowan, Lucille Reinbach-Welch. (1944).
+  Yields of barley varieties in the United States and Canada, 1937-41.
+  United States Dept of Agriculture, Technical Bulletin 881.
+  https://handle.nal.usda.gov/10113/CAT86200873</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Immer, R. F. and H. K. Hayes and LeRoy Powers. (1934).
   Statistical Determination of Barley Varietal Adaptation.
-  <em>Journal of the American Society of Agronomy</em>, 26, 403-419.
+  Journal of the American Society of Agronomy, 26, 403-419.
   https://doi.org/10.2134/agronj1934.00021962002600050008x</p>
 <p>Hayes, H.K. and Immer, F.R. (1942).
-  <em>Methods of plant breeding</em>. McGraw Hill.</p>
+  Methods of plant breeding.
+  McGraw Hill.</p>
 <p>Kevin Wright. (2013).  Revisiting Immer's Barley Data.
-  <em>The American Statistitician</em>, 67, 129-133.
+  The American Statistitician, 67, 129-133.
   https://doi.org/10.1080/00031305.2013.801783</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -152,17 +184,19 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Drop Dryland, Jeans, CompCross, MechMixture because they have less than 5</span></span></span>
 <span class="r-in"><span><span class="co"># year-loc values</span></span></span>
-<span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="op">!</span><span class="fu"><a href="https://rdrr.io/r/base/sets.html" class="external-link">is.element</a></span><span class="op">(</span><span class="va">gen</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"CompCross"</span>,<span class="st">"Dryland"</span>,<span class="st">"Jeans"</span>,<span class="st">"MechMixture"</span><span class="op">)</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="op">!</span><span class="fu"><a href="https://rdrr.io/r/base/sets.html" class="external-link">is.element</a></span><span class="op">(</span><span class="va">gen_name</span>, <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"CompCross"</span>,<span class="st">"Dryland"</span>,<span class="st">"Jeans"</span>,<span class="st">"MechMixture"</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">year</span> <span class="op">&gt;=</span> <span class="fl">1927</span> <span class="op">&amp;</span> <span class="va">year</span> <span class="op">&lt;=</span> <span class="fl">1936</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels</a></span><span class="op">(</span><span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># 1934 has huge swings from one loc to the next</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">gen</span><span class="op">~</span><span class="va">yield</span><span class="op">|</span><span class="va">site</span>, <span class="va">dat</span>, groups<span class="op">=</span><span class="va">yr</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">gen_name</span><span class="op">~</span><span class="va">yield</span><span class="op">|</span><span class="va">site</span>, <span class="va">dat</span>, groups<span class="op">=</span><span class="va">yr</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"minnesota.barley.yield"</span>,</span></span>
 <span class="r-in"><span>        auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">5</span><span class="op">)</span>, scales<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>y<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>cex<span class="op">=</span><span class="fl">.5</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -171,14 +205,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/montgomery.wheat.uniformity.html b/reference/montgomery.wheat.uniformity.html
index d42ba4a8..4d9500f7 100644
--- a/reference/montgomery.wheat.uniformity.html
+++ b/reference/montgomery.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of wheat at Nebraska Experiment Station, 1909 &amp;amp; 1911."><title>Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity"><meta property="og:description" content="Uniformity trial of wheat at Nebraska Experiment Station, 1909 &amp;amp; 1911."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity"><meta name="description" content="Uniformity trial of wheat at Nebraska Experiment Station, 1909 &amp;amp; 1911."><meta property="og:description" content="Uniformity trial of wheat at Nebraska Experiment Station, 1909 &amp;amp; 1911."><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat, 2 years on the same land</h1>
-      
+
       <div class="d-none name"><code>montgomery.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -67,7 +53,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
     <p>A data frame with 448 observations on the following 3 variables.</p><dl><dt><code>year</code></dt>
 <dd><p>year</p></dd>
-    
+
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
@@ -77,13 +63,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>Experiments were conducted by the Nebraska Experiment Station.</p>  
+
+<p>Experiments were conducted by the Nebraska Experiment Station.</p>
 <p>A field was sown to Turkey winter wheat in the fall of 1908 and
   harvested in 1909.  The drill, 5.5 feet wide, was driven across the
   first series of 14 blocks, the boundaries of the blocks being later
@@ -91,11 +77,11 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   between the blocks.  Each block was 5.5 ft square.</p>
 <p>The experiment was done 3 times with harvests in 1909, 1910, 1911.
   A simple heatmap of the 3 years' yields are shown in Montgomery
-  (1912), figure 3, p. 178.</p>  
+  (1912), figure 3, p. 178.</p>
 <p>The 1909 data are given by Montgomery (1913), figure 10, page 37.
   NOTE: North is at the right side of this diagram (as determined by
   comparing yield values with the fertility map in Montgomery 1912, p. 178).</p>
-<p>The 1910 data are not available.</p>  
+<p>The 1910 data are not available.</p>
 <p>The 1911 data are given by Montgomery (1912), figure 1, page
   165. NOTE: North is at the top of this diagram.</p>
 <p>Field width: 14 plots * 5.5 feet</p>
@@ -109,7 +95,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   Variation in Yield and Methods of Arranging Plats To Secure
   Comparative Results.
   Twenty-Fifth Annual Report of the Agricultural Experiment Station of Nebraska, 164-180.
-  https://books.google.com/books?id=M-5BAQAAMAAJ&amp;pg=RA4-PA164</p>  
+  https://books.google.com/books?id=M-5BAQAAMAAJ&amp;pg=RA4-PA164</p>
 <p>E. G. Montgomery (1913).
   Experiments in Wheat Breeding: Experimental Error In The Nursery and
   Variation in Nitrogen and Yield.
@@ -128,7 +114,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -139,10 +125,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Match the figures of Montgomery 1912 Fig 3, p. 178</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat09</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat09</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"montgomery.wheat.uniformity - 1909 yield"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">year</span><span class="op">==</span><span class="fl">1911</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">year</span><span class="op">==</span><span class="fl">1911</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"montgomery.wheat.uniformity - 1911 yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -159,20 +145,20 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat09</span><span class="op">$</span><span class="va">correct</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="va">dat09</span><span class="op">$</span><span class="va">yield</span> <span class="op">-</span> <span class="va">dev1</span>,<span class="fl">0</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat09</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat09</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          shorten<span class="op">=</span><span class="st">"none"</span>, text<span class="op">=</span><span class="va">yield</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"montgomery.wheat.uniformity 1909 observed"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat09</span>, <span class="va">correct</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, text<span class="op">=</span><span class="va">correct</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat09</span>, <span class="va">correct</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, text<span class="op">=</span><span class="va">correct</span>,</span></span>
 <span class="r-in"><span>          cex<span class="op">=</span><span class="fl">0.8</span>, shorten<span class="op">=</span><span class="st">"none"</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"montgomery.wheat.uniformity 1909 corrected"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Corrected yields are slightly shrunk toward overall mean</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">correct</span><span class="op">~</span><span class="va">yield</span>,<span class="va">dat09</span>, xlim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">350</span>,<span class="fl">1000</span><span class="op">)</span>, ylim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">350</span>,<span class="fl">1000</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/abline.html" class="external-link">abline</a></span><span class="op">(</span><span class="fl">0</span>,<span class="fl">1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -181,14 +167,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/moore.uniformity.html b/reference/moore.uniformity.html
index 03952350..06cad5f0 100644
--- a/reference/moore.uniformity.html
+++ b/reference/moore.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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-  spring and fall cauliflower at Washington, 1952-1955."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  spring and fall cauliflower at Washington, 1952-1955."><meta property="og:description" content="Uniformity trials of pole beans, bush beans, sweet corn, carrots,
+  spring and fall cauliflower at Washington, 1952-1955."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower</h1>
-      
+
       <div class="d-none name"><code>moore.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (pounds)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>All trials were grown on sandy loam soil in the Puyallup valley of
   Washington.  In most experiments a gradient in soil fertility was
@@ -97,19 +83,19 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>Field length: 24 ranges x 5 feet = 120 feet.</p>
 <p><b>Sweet Corn</b>.</p>
 <p>Conducted 1952. Table 28-29.</p>
-<p>Field width: 24 rows x 3 feet = 72 feet.</p>  
+<p>Field width: 24 rows x 3 feet = 72 feet.</p>
 <p>Field length: 12 ranges x 10 feet = 120 feet.</p>
 <p><b>Carrot</b>.</p>
 <p>Conducted 1952. Table 30.</p>
 <p>Field width: 24 rows * 1.5 feet = 36 feet.</p>
 <p>Field length: 12 ranges * 5 feet = 60 feet.</p>
 <p><b>Spring Cauliflower</b>.</p>
-<p>Conducted spring 1951.  Five harvests. Table 31-32.</p>  
-<p>Field width: 12 rows x 3 feet = 36 feet.</p>  
+<p>Conducted spring 1951.  Five harvests. Table 31-32.</p>
+<p>Field width: 12 rows x 3 feet = 36 feet.</p>
 <p>Field length: 10 plants * 1.5 feet * 20 ranges = 300 feet.</p>
 <p><b>Fall Cauliflower</b>.</p>
 <p>Conducted fall 1951. Five harvests. Table 33-34.</p>
-<p>Field width: 12 rows x 3 feet = 36 feet.</p>  
+<p>Field width: 12 rows x 3 feet = 36 feet.</p>
 <p>Field length: 10 plants * 1.5 feet * 20 ranges = 300 feet.</p>
     </div>
     <div class="section level2">
@@ -128,7 +114,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -139,21 +125,21 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Pole Bean</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">moore.polebean.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">moore.polebean.uniformity</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 8.00. Moore says 6.73.</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.polebean.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.polebean.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">120</span><span class="op">/</span><span class="fl">60</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"moore.polebean.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Bush bean</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">moore.bushbean.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">moore.bushbean.uniformity</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 12.1. Moore says 10.8</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.bushbean.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.bushbean.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">120</span><span class="op">/</span><span class="fl">72</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"moore.bushbean.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Sweet corn</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">moore.sweetcorn.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">moore.sweetcorn.uniformity</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 17.5. Moore says 13.6</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.sweetcorn.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.sweetcorn.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">120</span><span class="op">/</span><span class="fl">72</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"moore.sweetcorn.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co">## desplot(moore.sweetcorn.uniformity, ears~col*row,</span></span></span>
@@ -166,7 +152,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Carrot</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">moore.carrot.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">moore.carrot.uniformity</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 33.4. Moore says 27.6</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.carrot.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.carrot.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">60</span><span class="op">/</span><span class="fl">36</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"moore.carrot.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -174,7 +160,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Spring cauliflower</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">moore.springcauliflower.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">moore.springcauliflower.uniformity</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 21. Moore says 19.5</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.springcauliflower.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.springcauliflower.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">300</span><span class="op">/</span><span class="fl">36</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"moore.springcauliflower.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co">## desplot(moore.springcauliflower.uniformity, heads~col*row, </span></span></span>
@@ -187,7 +173,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Fall cauliflower</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">moore.fallcauliflower.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">moore.fallcauliflower.uniformity</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 17.7. Moore says 17.0</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.fallcauliflower.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">moore.fallcauliflower.uniformity</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, </span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">300</span><span class="op">/</span><span class="fl">36</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"moore.fallcauliflower.uniformity - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co">## desplot(moore.fallcauliflower.uniformity, heads~col*row, </span></span></span>
@@ -196,10 +182,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## libs(lattice)</span></span></span>
 <span class="r-in"><span>  <span class="co">## xyplot(yield ~ heads, moore.fallcauliflower.uniformity)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -208,14 +194,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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-  
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diff --git a/reference/nagai.strawberry.uniformity.html b/reference/nagai.strawberry.uniformity.html
index af127b44..c9f44018 100644
--- a/reference/nagai.strawberry.uniformity.html
+++ b/reference/nagai.strawberry.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of strawberry in Brazil."><title>Uniformity trial of strawberry — nagai.strawberry.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of strawberry — nagai.strawberry.uniformity"><meta property="og:description" content="Uniformity trial of strawberry in Brazil."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of strawberry</h1>
-      
+
       <div class="d-none name"><code>nagai.strawberry.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,7 +85,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -111,13 +97,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># 23.42</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">5.4</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">43.2</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"nagai.strawberry.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -126,14 +112,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/nair.turmeric.uniformity.html b/reference/nair.turmeric.uniformity.html
index a1b5ee01..d5be6abf 100644
--- a/reference/nair.turmeric.uniformity.html
+++ b/reference/nair.turmeric.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of turmeric in India, 1984."><title>Uniformity trial of turmeric. — nair.turmeric.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of turmeric. — nair.turmeric.uniformity"><meta property="og:description" content="Uniformity trial of turmeric in India, 1984."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of turmeric. — nair.turmeric.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of turmeric. — nair.turmeric.uniformity"><meta name="description" content="Uniformity trial of turmeric in India, 1984."><meta property="og:description" content="Uniformity trial of turmeric in India, 1984."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of turmeric.</h1>
-      
+
       <div class="d-none name"><code>nair.turmeric.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>An experiment conducted at the College of Horticulture, Vellanikkara,
   India, in 1984. The crop was grown in raised beds.</p>
@@ -88,7 +74,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   discarded to eliminate border effects. After discarding the borders,
   there were 432 beds in the experiment. At the time of harvest, each
   bed was divided into equal plots of size .6 m x .75 m, and the yield
-  from each plot was recorded.</p>  
+  from each plot was recorded.</p>
 <p>Field map on page 64 of Nair.   Nair focused mostly on the statistical
   methods and did not discuss the actual experimental results in very
   much detail.</p>
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">nair.turmeric.uniformity</span><span class="op">)</span></span></span>
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/qqmath.html" class="external-link">qqmath</a></span><span class="op">(</span> <span class="op">~</span> <span class="va">yield</span>, <span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">13.6</span><span class="op">/</span><span class="fl">68</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"nair.turmeric.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -136,14 +122,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/narain.sorghum.uniformity.html b/reference/narain.sorghum.uniformity.html
index d6ad1a5f..9ca56622 100644
--- a/reference/narain.sorghum.uniformity.html
+++ b/reference/narain.sorghum.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sorghum</h1>
-      
+
       <div class="d-none name"><code>narain.sorghum.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, maunds per 1/40 acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>A uniformity trial with chari (sorghum) at Rawalpindi Agricultural
   Station (Pakistan) in kharif (monsoon season) in 1936. Each plot was
@@ -102,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -111,14 +97,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># Narain figure 1</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">16</span><span class="op">*</span><span class="fl">36</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">10</span><span class="op">*</span><span class="fl">30.25</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"narain.sorghum.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -127,14 +113,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/nass.corn.html b/reference/nass.corn.html
index 115b4b1e..8b04be9b 100644
--- a/reference/nass.corn.html
+++ b/reference/nass.corn.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yields and acres harvested in each state for the major agricultural
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>U.S. historical crop yields by state — nass.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="U.S. historical crop yields by state — nass.corn"><meta name="description" content="Yields and acres harvested in each state for the major agricultural
   crops in the United States, from approximately 1900 to 2011.
-  Crops include: barley, corn, cotton, hay, rice, sorghum, soybeans, wheat."><title>U.S. historical crop yields by state — nass.corn • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="U.S. historical crop yields by state — nass.corn"><meta property="og:description" content="Yields and acres harvested in each state for the major agricultural
+  Crops include: barley, corn, cotton, hay, rice, sorghum, soybeans, wheat."><meta property="og:description" content="Yields and acres harvested in each state for the major agricultural
   crops in the United States, from approximately 1900 to 2011.
-  Crops include: barley, corn, cotton, hay, rice, sorghum, soybeans, wheat."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+  Crops include: barley, corn, cotton, hay, rice, sorghum, soybeans, wheat."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>U.S. historical crop yields by state</h1>
-      
+
       <div class="d-none name"><code>nass.corn.Rd</code></div>
     </div>
 
@@ -90,7 +76,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>average yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -109,7 +95,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">nass.corn</span><span class="op">)</span></span></span>
@@ -144,10 +130,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/lines.html" class="external-link">lines</a></span><span class="op">(</span><span class="va">dil</span><span class="op">$</span><span class="va">year</span>, <span class="fu"><a href="https://rdrr.io/r/stats/fitted.values.html" class="external-link">fitted</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/abline.html" class="external-link">abline</a></span><span class="op">(</span>v<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1932</span>,<span class="fl">1959</span>,<span class="fl">1995</span><span class="op">)</span>, col<span class="op">=</span><span class="st">"wheat"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -156,14 +142,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/nebraska.farmincome.html b/reference/nebraska.farmincome.html
index e1946e70..21d6d39c 100644
--- a/reference/nebraska.farmincome.html
+++ b/reference/nebraska.farmincome.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Nebraska farm income in 2007 by county"><title>Nebraska farm income in 2007 by county — nebraska.farmincome • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Nebraska farm income in 2007 by county — nebraska.farmincome"><meta property="og:description" content="Nebraska farm income in 2007 by county"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Nebraska farm income in 2007 by county — nebraska.farmincome • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Nebraska farm income in 2007 by county — nebraska.farmincome"><meta name="description" content="Nebraska farm income in 2007 by county"><meta property="og:description" content="Nebraska farm income in 2007 by county"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
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-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Nebraska farm income in 2007 by county</h1>
-      
+
       <div class="d-none name"><code>nebraska.farmincome.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>area</code></dt>
 <dd><p>area of each county, square miles</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,7 +81,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -138,10 +124,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>        <span class="co">#                       n=7, style='fisher')$brks</span></span></span>
 <span class="r-in"><span>        breaks<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0</span>,<span class="fl">.049</span>, <span class="fl">.108</span>, <span class="fl">.178</span>, <span class="fl">.230</span>, <span class="fl">.519</span>, <span class="fl">.958</span>, <span class="fl">1.31</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -150,14 +136,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/nonnecke.peas.uniformity.html b/reference/nonnecke.peas.uniformity.html
index 9dfc0489..10d83fff 100644
--- a/reference/nonnecke.peas.uniformity.html
+++ b/reference/nonnecke.peas.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of canning peas</h1>
-      
+
       <div class="d-none name"><code>nonnecke.peas.uniformity.Rd</code></div>
     </div>
 
@@ -80,12 +66,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>peas</code></dt>
 <dd><p>shelled peas weight, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Width of basic plot was 10 feet, length was 5 feet, as limited by the
   viner. At each of two blocks/locations, planting consisted of 18 rows
   (only 15 rows were harvested) that were 10 feet wide and 90 feet
@@ -115,7 +101,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -123,10 +109,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">nonnecke.peas.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">vines</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">vines</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">248</span><span class="op">/</span><span class="fl">90</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"nonnecke.peas.uniformity - vines"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">peas</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">peas</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">248</span><span class="op">/</span><span class="fl">90</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"nonnecke.peas.uniformity - peas"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -135,10 +121,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         xlab<span class="op">=</span><span class="st">"vine weight"</span>, ylab<span class="op">=</span><span class="st">"shelled pea weight"</span>,</span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"nonnecke.peas.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -147,14 +133,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/nonnecke.sweetcorn.uniformity.html b/reference/nonnecke.sweetcorn.uniformity.html
index bfb29dd8..804ba762 100644
--- a/reference/nonnecke.sweetcorn.uniformity.html
+++ b/reference/nonnecke.sweetcorn.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trials of sweet corn in Alberta, 1956."><title>Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity"><meta property="og:description" content="Uniformity trials of sweet corn in Alberta, 1956."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sweet corn</h1>
-      
+
       <div class="d-none name"><code>nonnecke.sweetcorn.uniformity.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield of marketable ears, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiments were conducted at three locations in Southern Alberta at
   Lethbridge, Vauxhall, and Cranford in 1956. Plot layout was 32 rows,
@@ -90,7 +76,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   surrounded the entire plot.  The same two persons were assigned to
   harvest the corn from all locations.  All 576 plots were harvested in
   one day. Optimal plot sizes were found to be 10ft x 6ft or 20ft by
-  3ft. The R data uses row/column for plot/row.</p>  
+  3ft. The R data uses row/column for plot/row.</p>
 <p>Field width: 18 plots * 10 ft = 180 feet</p>
 <p>Field length: 32 rows * 3 ft = 96 feet</p>
     </div>
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">nonnecke.sweetcorn.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">loc</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">96</span><span class="op">/</span><span class="fl">180</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"nonnecke.sweetcorn.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -136,14 +122,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/obsi.potato.uniformity.html b/reference/obsi.potato.uniformity.html
index c291459b..ae82c260 100644
--- a/reference/obsi.potato.uniformity.html
+++ b/reference/obsi.potato.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of potato in Africa in 2001"><title>Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity"><meta property="og:description" content="Uniformity trial of potato in Africa in 2001"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity"><meta name="description" content="Uniformity trial of potato in Africa in 2001"><meta property="og:description" content="Uniformity trial of potato in Africa in 2001"><meta property="og:image" content="/logo.png"></head><body>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of potato in Africa 2001</h1>
-      
+
       <div class="d-none name"><code>obsi.potato.uniformity.Rd</code></div>
     </div>
 
@@ -77,20 +63,20 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/m^2</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Data collected from potato uniformity trials at Hollota (L1) and Kulumsa (L2).
-  Each field was 0.15 hectares.</p>  
+  Each field was 0.15 hectares.</p>
 <p>In each field, 75cm between rows and 60cm between plants. The basic
   units harvested were 1.2m x 1.5m. It is not clear which way the plots
   are oriented in the field with respect to the rows and columns.</p>
 <p>At location L1, plot (10,7) was 22.5 in the source document, but was
   changed to 2.25 for this electronic data.</p>
-<p>Hollota:</p>  
+<p>Hollota:</p>
 <p>Field width: 26 * 1.2 m</p>
-<p>Field length: 63 rows * 1.5 m</p>  
+<p>Field length: 63 rows * 1.5 m</p>
 <p>Note the horizontal banding of 8 or 9 rows at location L1.</p>
 <p>Kulumsa</p>
 <p>Field width: 19 * 1.2 m</p>
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">obsi.potato.uniformity</span><span class="op">)</span></span></span>
@@ -126,16 +112,16 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 2 L2     5.31 # Obsi says 5.36</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">loc</span><span class="op">==</span><span class="st">"L1"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">loc</span><span class="op">==</span><span class="st">"L1"</span>,</span></span>
 <span class="r-in"><span>  main<span class="op">=</span><span class="st">"obsi.potato.uniformity - loc L1"</span>,</span></span>
 <span class="r-in"><span>  flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">loc</span><span class="op">==</span><span class="st">"L2"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">loc</span><span class="op">==</span><span class="st">"L2"</span>,</span></span>
 <span class="r-in"><span>  main<span class="op">=</span><span class="st">"obsi.potato.uniformity - loc L2"</span>,</span></span>
 <span class="r-in"><span>  flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -144,14 +130,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/odland.soybean.uniformity.html b/reference/odland.soybean.uniformity.html
index 77f8e2bb..30ec4842 100644
--- a/reference/odland.soybean.uniformity.html
+++ b/reference/odland.soybean.uniformity.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trials of soy hay and soybeans at Virginia Experiment
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-  Station, 1925-1926."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trials of soy hay and soybeans — odland.soybean.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trials of soy hay and soybeans — odland.soybean.uniformity"><meta name="description" content="Uniformity trials of soy hay and soybeans at Virginia Experiment
+  Station, 1925-1926."><meta property="og:description" content="Uniformity trials of soy hay and soybeans at Virginia Experiment
+  Station, 1925-1926."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of soy hay and soybeans</h1>
-      
+
       <div class="d-none name"><code>odland.soybean.uniformity.Rd</code></div>
     </div>
 
@@ -73,27 +59,27 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield: hay in tons/acre, beans in bushels/acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Grown at West Virginia Experiment Station in 1925 &amp; 1926.</p>
 <p>Soy forage hay:</p>
 <p>In 1925 the crop was harvested for forage, 42 rows, each 200 feet long.
-  Yields of 8-foot plats recorded to the nearest 0.1 tons.</p>  
-<p>Field width: 42 plots * 30 in / 12in/ft = 105 ft</p>  
+  Yields of 8-foot plats recorded to the nearest 0.1 tons.</p>
+<p>Field width: 42 plots * 30 in / 12in/ft = 105 ft</p>
 <p>Field length: 24 plots * 8 feet = 192 feet + border = total 200 feet.</p>
 <p>Note, the hay data in Odland &amp; Garber is measured in 0.1 tons, but has
-  been converted to tons here.</p>  
-<p>Soy beans:</p>  
+  been converted to tons here.</p>
+<p>Soy beans:</p>
 <p>Soybeans were planted in rows 30 inches apart.
   In 1926 the crop was harvested for seed, 55 rows, each 232 feet long.
   Yields of 8-foot plats were recorded.
-  In 1926, data for the last row on page 96 seems to be missing.</p>    
-<p>Field width: 55 plots * 30 in / 12in/ft = 137.5 feet</p>  
-<p>Field length: 28 plots * 8 feet = 224 feet + border = total 232 feet.</p>  
+  In 1926, data for the last row on page 96 seems to be missing.</p>
+<p>Field width: 55 plots * 30 in / 12in/ft = 137.5 feet</p>
+<p>Field length: 28 plots * 8 feet = 224 feet + border = total 232 feet.</p>
 <p>Odland and Garber provide no agronomic context for the yield variation.</p>
     </div>
     <div class="section level2">
@@ -101,13 +87,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Odland, T.E. and Garber, R.J. (1928).
   Size of Plat and Number of Replications in Field Experiments with
   Soybeans.
-  Agronomy Journal, 20, 93--108.
+  Agronomy Journal, 20, 93–108.
   https://doi.org/10.2134/agronj1928.00021962002000020002x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -115,20 +101,20 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">odland.soyhay.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat1</span> <span class="op">&lt;-</span> <span class="va">odland.soyhay.uniformity</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat1</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat1</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">200</span><span class="op">/</span><span class="fl">105</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"odland.soyhay.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">odland.soybean.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat2</span> <span class="op">&lt;-</span> <span class="va">odland.soybean.uniformity</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect <span class="op">=</span> <span class="fl">232</span><span class="op">/</span><span class="fl">137</span>, </span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"odland.soybean.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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diff --git a/reference/omer.sorghum.html b/reference/omer.sorghum.html
index c15cdb1c..1010831e 100644
--- a/reference/omer.sorghum.html
+++ b/reference/omer.sorghum.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of sorghum, 6 environments"><title>Multi-environment trial of sorghum, 6 environments — omer.sorghum • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of sorghum, 6 environments — omer.sorghum"><meta property="og:description" content="Multi-environment trial of sorghum, 6 environments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of sorghum, 6 environments — omer.sorghum • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of sorghum, 6 environments — omer.sorghum"><meta name="description" content="Multi-environment trial of sorghum, 6 environments"><meta property="og:description" content="Multi-environment trial of sorghum, 6 environments"><meta property="og:image" content="/logo.png"></head><body>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of sorghum, 6 environments</h1>
-      
+
       <div class="d-none name"><code>omer.sorghum.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -140,10 +126,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">##   env:rep (Intercept) &lt;NA&gt;  1152  33.95</span></span></span>
 <span class="r-in"><span><span class="co">##       gen (Intercept) &lt;NA&gt;  1169  34.2</span></span></span>
 <span class="r-in"><span><span class="co">##  Residual        &lt;NA&gt; &lt;NA&gt; 24660 157</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -152,14 +138,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/onofri.winterwheat.html b/reference/onofri.winterwheat.html
index 509448a1..dd0e8348 100644
--- a/reference/onofri.winterwheat.html
+++ b/reference/onofri.winterwheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of winter wheat, 7 years, 8 gen"><title>Multi-environment trial of winter wheat, 7 years — onofri.winterwheat • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of winter wheat, 7 years — onofri.winterwheat"><meta property="og:description" content="Multi-environment trial of winter wheat, 7 years, 8 gen"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <div class="d-none name"><code>onofri.winterwheat.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield for each plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -134,7 +120,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
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@@ -143,14 +129,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/ortiz.tomato.html b/reference/ortiz.tomato.html
index 4c0aa436..e2bcd7a6 100644
--- a/reference/ortiz.tomato.html
+++ b/reference/ortiz.tomato.html
@@ -1,56 +1,42 @@
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-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates"><title>Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato"><meta property="og:description" content="Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates</h1>
-      
+
       <div class="d-none name"><code>ortiz.tomato.Rd</code></div>
     </div>
 
@@ -66,7 +52,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p>The <code>ortiz.tomato.covs</code> data frame has 18 observations on the following 18 variables.</p><dl><dt><code>env</code></dt>
 <dd><p>environment</p></dd>
@@ -125,7 +111,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>Tri</code></dt>
 <dd><p>trimming (0/1)</p></dd>
 
-  
+
 </dl><p>The <code>ortiz.tomato.yield</code> data frame has 270 observations on the following 4 variables.</p><dl><dt><code>env</code></dt>
 <dd><p>environment</p></dd>
 
@@ -138,11 +124,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>fruit weight, g</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The environment locations are:</p><table class="table table"><tr><td>E04</td><td>Estanzuela, Guatemala</td></tr><tr><td>E05</td><td>Baja Verapaz, Guatemala</td></tr><tr><td>E06</td><td>Cogutepeque, El Salvador</td></tr><tr><td>E07</td><td>San Andres, El Salvador</td></tr><tr><td>E11</td><td>Comayagua, Honduras</td></tr><tr><td>E14</td><td>Valle de Sabaco, Nicaragua</td></tr><tr><td>E15</td><td>San Antonio de Belen, Costa Rica</td></tr><tr><td>E20</td><td>San Cristobal, Dominican Republic</td></tr><tr><td>E21</td><td>Constanza, Dominican Republic</td></tr><tr><td>E27</td><td>Palmira, Colombia</td></tr><tr><td>E40</td><td>La Molina, Peru</td></tr><tr><td>E41</td><td>Santiago, Chile</td></tr><tr><td>E42</td><td>Chillan, Chile</td></tr><tr><td>E43</td><td>Curacavi, Chile</td></tr><tr><td>E44</td><td>Colina, Chile</td></tr><tr><td>E50</td><td>Belem, Brazil</td></tr><tr><td>E51</td><td>Caacupe, Paraguay</td></tr><tr><td>E53</td><td>Centeno, Trinidad Tobago</td></tr></table><p>Used with permission of Rodomiro Ortiz.</p>
     </div>
@@ -151,13 +137,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Rodomiro Ortiz and Jose Crossa and Mateo Vargas and Juan Izquierdo, 2007.
   Studying the Effect of Environmental Variables On the Genotype x
   Environment Interaction of Tomato.
-  Euphytica, 153, 119--134.
+  Euphytica, 153, 119–134.
   https://doi.org/10.1007/s10681-006-9248-7</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ortiz.tomato.covs</span><span class="op">)</span></span></span>
@@ -183,10 +169,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Inner-product relationships similar to Ortiz figure 1.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">m1</span>, which<span class="op">=</span><span class="st">"x"</span>, var.axes<span class="op">=</span><span class="cn">TRUE</span>, main<span class="op">=</span><span class="st">"ortiz.tomato - env*cov biplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co">#biplot(m1, which="y", var.axes=TRUE)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -195,14 +181,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/pacheco.soybean.html b/reference/pacheco.soybean.html
index cee60b43..9b274f88 100644
--- a/reference/pacheco.soybean.html
+++ b/reference/pacheco.soybean.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yields of 18 soybean genotypes at 11 environments in Brazil."><title>Multi-environment trial of soybean in Brazil. — pacheco.soybean • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of soybean in Brazil. — pacheco.soybean"><meta property="og:description" content="Yields of 18 soybean genotypes at 11 environments in Brazil."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of soybean in Brazil. — pacheco.soybean • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of soybean in Brazil. — pacheco.soybean"><meta name="description" content="Yields of 18 soybean genotypes at 11 environments in Brazil."><meta property="og:description" content="Yields of 18 soybean genotypes at 11 environments in Brazil."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of soybean in Brazil.</h1>
-      
+
       <div class="d-none name"><code>pacheco.soybean.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,7 +74,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">pacheco.soybean</span><span class="op">)</span></span></span>
@@ -106,10 +92,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                         <span class="fu"><a href="https://rdrr.io/r/graphics/text.html" class="external-link">text</a></span><span class="op">(</span><span class="va">yield</span>,<span class="va">PC1</span>,labels<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/row.names.html" class="external-link">row.names</a></span><span class="op">(</span><span class="va">bip</span><span class="op">[</span><span class="fl">19</span><span class="op">:</span><span class="fl">29</span>,<span class="op">]</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                              col<span class="op">=</span><span class="st">"darkgreen"</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -118,14 +104,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/paez.coffee.uniformity.html b/reference/paez.coffee.uniformity.html
index 64f8aea2..40c4c781 100644
--- a/reference/paez.coffee.uniformity.html
+++ b/reference/paez.coffee.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of coffee in Caldas Columbia"><title>Uniformity trial of coffee — paez.coffee.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of coffee — paez.coffee.uniformity"><meta property="og:description" content="Uniformity trial of coffee in Caldas Columbia"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of coffee</h1>
-      
+
       <div class="d-none name"><code>paez.coffee.uniformity.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per tree, kilograms</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -91,7 +77,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   that the rows are not at a 90-degree angle compared to the columns,
   but only at a 60-degree angle compared to the columns.  In other
   words, the columns are vertical, and the rows are sloping up and right
-  at about 30 degrees.</p>  
+  at about 30 degrees.</p>
 <p>Paez looks at blocks that are 1,2,...36 trees in size.
   Page 30 shows annual CV.</p>
     </div>
@@ -109,7 +95,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">paez.coffee.uniformity</span><span class="op">)</span></span></span>
@@ -123,26 +109,26 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Not quite right. The rows are not actually horizontal.  See notes above.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y1"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y1"</span>,</span></span>
 <span class="r-in"><span>        tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"paez.coffee.uniformity - Y1"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y2"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y2"</span>,</span></span>
 <span class="r-in"><span>        tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"paez.coffee.uniformity - Y2"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y3"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y3"</span>,</span></span>
 <span class="r-in"><span>        tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"paez.coffee.uniformity - Y3"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y4"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y4"</span>,</span></span>
 <span class="r-in"><span>        tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"paez.coffee.uniformity - Y4"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y5"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="st">"Y5"</span>,</span></span>
 <span class="r-in"><span>        tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"paez.coffee.uniformity - Y5"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/panse.cotton.uniformity.html b/reference/panse.cotton.uniformity.html
index 7c574730..c490a520 100644
--- a/reference/panse.cotton.uniformity.html
+++ b/reference/panse.cotton.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of cotton in India in 1934."><title>Uniformity trial of cotton — panse.cotton.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of cotton — panse.cotton.uniformity"><meta property="og:description" content="Uniformity trial of cotton in India in 1934."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton</h1>
-      
+
       <div class="d-none name"><code>panse.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -74,18 +60,18 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>total yield per plot, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>A uniformity trial of cotton at the Institute of Plant Industry, Indore, India.</p>  
+    <p>A uniformity trial of cotton at the Institute of Plant Industry, Indore, India.</p>
 <p>The  trial consisted of 128 rows of cotton with a spacing of 14 inches
-  between rows and length 186 feet 8 inches.</p>  
-<p>Each harvested plot was 4 rows wide and  4 ft 8 in long, measuring 1/2000 acre.</p>  
-<p>Four pickings were made between Nov 1933 and Jan 1934. The data here are the total yields.</p>  
+  between rows and length 186 feet 8 inches.</p>
+<p>Each harvested plot was 4 rows wide and  4 ft 8 in long, measuring 1/2000 acre.</p>
+<p>Four pickings were made between Nov 1933 and Jan 1934. The data here are the total yields.</p>
 <p>The fertility map shows appreciable variation, not following any
-  systematic pattern.</p>  
-<p>Field length: 40 plots * 4 feet 8 inches = 206 feet 8 inches</p>  
+  systematic pattern.</p>
+<p>Field length: 40 plots * 4 feet 8 inches = 206 feet 8 inches</p>
 <p>Field width: 32 plots * 4 rows/plot * 14 inches/row = 150 feet</p>
 <p>Conclusions: Lower error was obtained when the plots were long rows
   instead of across the rows.</p>
@@ -95,7 +81,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>V. G. Panse (1941).
   Studies in the technique of field experiments. V. Size and shape of
-  blocks and arrangements of plots in cotton trials. 
+  blocks and arrangements of plots in cotton trials.
   The Indian Journal Of Agricultural Science, 11, 850-867
   https://archive.org/details/in.ernet.dli.2015.271747/page/n955</p>
     </div>
@@ -103,7 +89,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Hutchinson, J. B. and V. G. Panse (1936).
   Studies in the technique of field experiments. I. Size, shape and
-  arrangement of plots in cotton trials. 
+  arrangement of plots in cotton trials.
   Indian J. Agric. Sci., 5, 523-538.
   https://archive.org/details/in.ernet.dli.2015.271739/page/n599</p>
 <p>V.G. Panse and P.V. Sukhatme. (1954).
@@ -113,7 +99,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">panse.cotton.uniformity</span><span class="op">)</span></span></span>
@@ -125,14 +111,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="co"># match the fertility map of Hutchinson, fig 1</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">207</span><span class="op">/</span><span class="fl">150</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"panse.cotton.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span>  </span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }  </span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index 3dfb1277..ad202716 100644
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+++ b/reference/parker.orange.uniformity.html
@@ -1,56 +1,42 @@
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of oranges</h1>
-      
+
       <div class="d-none name"><code>parker.orange.uniformity.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds/tree for plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>An orchard of naval oranges was planted in 1917 at the University of
   California Citrus Experiment Station at Riverside.  The orchard was
@@ -120,14 +106,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Batchelor, L. D. (Leon Dexter), b. 1884; Parker, E. R. (Edwin Robert), 1896-1952; McBride, Robert, d. 1927. (1928)
   Studies preliminary to the establishment of a series of fertilizer
-  trials in a bearing citrus grove. 
+  trials in a bearing citrus grove.
   Vol B451. Berkeley, Cal. : Agricultural Experiment Station
   https://archive.org/details/studiesprelimina451batc</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -138,7 +124,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span><span class="op">$</span><span class="va">year</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">year</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># 27 rows * 48 ft x 10 cols * 200 feet</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>        flip <span class="op">=</span> <span class="cn">TRUE</span>, aspect <span class="op">=</span> <span class="fl">27</span><span class="op">*</span><span class="fl">48</span><span class="op">/</span><span class="op">(</span><span class="fl">10</span><span class="op">*</span><span class="fl">200</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main <span class="op">=</span> <span class="st">"parker.orange.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -166,14 +152,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="fu">acast</span><span class="op">(</span><span class="va">dat3</span>, <span class="va">row</span> <span class="op">~</span> <span class="va">col</span>, value.var <span class="op">=</span> <span class="st">'yield'</span><span class="op">)</span>,<span class="fl">0</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat3</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat3</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        flip <span class="op">=</span> <span class="cn">TRUE</span>, aspect <span class="op">=</span> <span class="fl">27</span><span class="op">*</span><span class="fl">48</span><span class="op">/</span><span class="op">(</span><span class="fl">10</span><span class="op">*</span><span class="fl">200</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main <span class="op">=</span> <span class="st">"parker.orange.uniformity - mean across years"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -182,14 +168,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/patterson.switchback.html b/reference/patterson.switchback.html
index 181a4825..cbf3a2d7 100644
--- a/reference/patterson.switchback.html
+++ b/reference/patterson.switchback.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Switchback experiment on dairy cattle, milk yield for 4 treatments"><title>Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback"><meta property="og:description" content="Switchback experiment on dairy cattle, milk yield for 4 treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback"><meta name="description" content="Switchback experiment on dairy cattle, milk yield for 4 treatments"><meta property="og:description" content="Switchback experiment on dairy cattle, milk yield for 4 treatments"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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       <span class="navbar-toggler-icon"></span>
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Switchback experiment on dairy cattle, milk yield for 4 treatments</h1>
-      
+
       <div class="d-none name"><code>patterson.switchback.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>cow</code></dt>
 <dd><p>cow factor, 12 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,7 +91,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">patterson.switchback</span><span class="op">)</span></span></span>
@@ -140,10 +126,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">## trt        3   58.3  19.418  3.5237 0.0685092 .</span></span></span>
 <span class="r-in"><span><span class="co">## Residuals  8   44.1   5.511</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -152,14 +138,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/payne.wheat.html b/reference/payne.wheat.html
index cb759c0a..1bb6a74c 100644
--- a/reference/payne.wheat.html
+++ b/reference/payne.wheat.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Long term rotation experiment at Rothamsted</h1>
-      
+
       <div class="d-none name"><code>payne.wheat.Rd</code></div>
     </div>
 
@@ -77,21 +63,21 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>metric tons per hectare</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>The rotation treatments are:</p>  
+    <p>The rotation treatments are:</p>
 <p>AB = arable rotation with spring barley.
   AF = arable rotation with bare fallow.
   Ln3 = 3-year grass lay between crops.
   Ln8 = 8-year grass lay between crops.
   Lc3 = 3-year grass-clover lay between crops.
   Lc8 = 8-year grass-clover lay between crops.</p>
-  
+
 <p>The full data are available via CC-BY 4.0 license at:
   Margaret Glendining, Paul Poulton, Andrew Macdonald, Chloe MacLaren,
-  Suzanne Clark (2022). 
+  Suzanne Clark (2022).
   Dataset: Woburn Ley-arable experiment: yields of wheat as first test
   crop, 1976-2018 Electronic Rothamsted Archive, Rothamsted Research.
   https://doi.org/10.23637/wrn3-wheat7618-01</p>
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">payne.wheat</span><span class="op">)</span></span></span>
@@ -161,10 +147,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>           ylab<span class="op">=</span><span class="st">"yield t/ha"</span>, type<span class="op">=</span><span class="st">'l'</span>, auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">5</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -173,14 +159,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/pearce.apple.html b/reference/pearce.apple.html
index 935a9427..93ab6d16 100644
--- a/reference/pearce.apple.html
+++ b/reference/pearce.apple.html
@@ -1,56 +1,42 @@
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-<li class="nav-item">
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-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Apple tree yields for 6 treatments with covariate</h1>
-      
+
       <div class="d-none name"><code>pearce.apple.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">pearce.apple</span><span class="op">)</span></span></span>
@@ -129,10 +115,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co">#        A        B        C        D        E        S</span></span></span>
 <span class="r-in"><span><span class="co"># 280.4041 266.5453 274.0453 281.3329 301.3432 250.8291</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/pearl.kernels.html b/reference/pearl.kernels.html
index 7923c4d2..92b1ae57 100644
--- a/reference/pearl.kernels.html
+++ b/reference/pearl.kernels.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Counts of yellow/white and sweet/starchy kernels on each of 4 maize
-  ears by 15 observers."><title>Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels"><meta property="og:description" content="Counts of yellow/white and sweet/starchy kernels on each of 4 maize
-  ears by 15 observers."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels"><meta name="description" content="Counts of yellow/white and sweet/starchy kernels on each of 4 maize
+  ears by 15 observers."><meta property="og:description" content="Counts of yellow/white and sweet/starchy kernels on each of 4 maize
+  ears by 15 observers."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Counts of yellow/white and sweet/starchy maize kernels by 15 observers</h1>
-      
+
       <div class="d-none name"><code>pearl.kernels.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>wt</code></dt>
 <dd><p>white sweet</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -104,7 +90,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -123,10 +109,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">pval</span><span class="op">~</span><span class="va">obs</span><span class="op">|</span><span class="va">ear</span>, <span class="va">dat</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">4</span><span class="op">)</span>, main<span class="op">=</span><span class="st">"pearl.kernels"</span>,</span></span>
 <span class="r-in"><span>        ylab<span class="op">=</span><span class="st">"P-value for test of 9:3:3:1 distribution"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/pederson.lettuce.repeated.html b/reference/pederson.lettuce.repeated.html
index b9123bba..bf6088ae 100644
--- a/reference/pederson.lettuce.repeated.html
+++ b/reference/pederson.lettuce.repeated.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Repeated measurements of lettuce growth</h1>
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+
       <div class="d-none name"><code>pederson.lettuce.repeated.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight</code></dt>
 <dd><p>weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,7 +85,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">pederson.lettuce.repeated</span><span class="op">)</span></span></span>
@@ -132,10 +118,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># and just "look" better</span></span></span>
 <span class="r-in"><span><span class="va">un1</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -144,14 +130,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/perry.springwheat.html b/reference/perry.springwheat.html
index cdf9e15c..87c39df2 100644
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+++ b/reference/perry.springwheat.html
@@ -1,56 +1,42 @@
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-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat cultivars introduced 1860-1982.</h1>
-      
+
       <div class="d-none name"><code>perry.springwheat.Rd</code></div>
     </div>
 
@@ -83,11 +69,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yor</code></dt>
 <dd><p>year of release, 1860-1982</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Twenty-eight of the most significant wheat cultivars of the past
   century in Western  Australia, were grown in 20 field trials over 4
@@ -105,13 +91,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>MW Perry and MF D'Antuono. (1989).
   Yield improvement and associated characteristics of some Australian
   spring wheat cultivars introduced between 1860 and 1982.
-  Australian Journal of Agricultural Research, 40(3), 457--472.
+  Australian Journal of Agricultural Research, 40(3), 457–472.
   https://www.publish.csiro.au/nid/43/issue/1237.htm</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">perry.springwheat</span><span class="op">)</span></span></span>
@@ -121,7 +107,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">yor</span><span class="op">|</span><span class="va">env</span>, <span class="va">dat</span>, type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'p'</span>,<span class="st">'r'</span><span class="op">)</span>, xlab<span class="op">=</span><span class="st">"year of release"</span>,</span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"perry.springwheat"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="co"># Show a table of sites*year</span></span></span>
+<span class="r-in"><span>  <span class="co"># Show the genetic trend for each testing location * year.</span></span></span>
 <span class="r-in"><span>  <span class="co"># libs(latticeExtra)</span></span></span>
 <span class="r-in"><span>  <span class="co"># useOuterStrips(xyplot(yield~yor|site*factor(year), dat,</span></span></span>
 <span class="r-in"><span>  <span class="co">#                       type=c('p','r')))</span></span></span>
@@ -167,23 +153,23 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="kw">if</span><span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="st">"asreml"</span>, quietly<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span><span class="op">)</span><span class="op">{</span></span></span>
 <span class="r-in"><span>    <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">asreml</span>,<span class="va">lucid</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m3a</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="fl">1</span> <span class="op">+</span> <span class="va">yorc</span>, data<span class="op">=</span><span class="va">dat</span>, random <span class="op">=</span> <span class="op">~</span> <span class="va">env</span> <span class="op">+</span> <span class="va">env</span><span class="op">:</span><span class="va">yorc</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m3</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m3</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##      grp        var1 var2     vcov   sdcor</span></span></span>
 <span class="r-in"><span>    <span class="co">##      env (Intercept) &lt;NA&gt; 11.61    3.407</span></span></span>
 <span class="r-in"><span>    <span class="co">##    env.1        yorc &lt;NA&gt;  0.00063 0.02511</span></span></span>
 <span class="r-in"><span>    <span class="co">## Residual        &lt;NA&gt; &lt;NA&gt;  3.551   1.884</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m3a</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m3a</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##           effect component std.error z.ratio      con</span></span></span>
 <span class="r-in"><span>    <span class="co">##      env!env.var  11.61     4.385        2.6 Positive</span></span></span>
 <span class="r-in"><span>    <span class="co">## env:yorc!env.var   0.00063  0.000236     2.7 Positive</span></span></span>
 <span class="r-in"><span>    <span class="co">##       R!variance   3.551    0.2231      16   Positive</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -192,14 +178,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/petersen.sorghum.cowpea.html b/reference/petersen.sorghum.cowpea.html
index 3649623d..7fd1aa91 100644
--- a/reference/petersen.sorghum.cowpea.html
+++ b/reference/petersen.sorghum.cowpea.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Intercropping experiment of sorghum/cowpea."><title>Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea"><meta property="og:description" content="Intercropping experiment of sorghum/cowpea."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea"><meta name="description" content="Intercropping experiment of sorghum/cowpea."><meta property="og:description" content="Intercropping experiment of sorghum/cowpea."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Intercropping experiment of sorghum/cowpea</h1>
-      
+
       <div class="d-none name"><code>petersen.sorghum.cowpea.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>cyield</code></dt>
 <dd><p>cowpea yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">agridat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">petersen.sorghum.cowpea</span><span class="op">)</span></span></span>
@@ -119,10 +105,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/title.html" class="external-link">title</a></span><span class="op">(</span><span class="st">"Cow Pea (red), Sorghum (black), Total (blue)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/title.html" class="external-link">title</a></span><span class="op">(</span><span class="st">"petersen.sorghum.cowpea"</span>, line<span class="op">=</span><span class="fl">0.5</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -131,14 +117,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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+++ b/reference/piepho.barley.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of barley</h1>
-      
+
       <div class="d-none name"><code>piepho.barley.uniformity.Rd</code></div>
     </div>
 
@@ -73,18 +59,18 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
 
     <dt><code>yield</code></dt>
 <dd><p>yield per plot</p></dd>
-    
-  
+
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Uniformity trial of barley at Ihinger Hof farm, conducted by the
-  University of Hohenheim, Germany, in 2007.</p>  
+  University of Hohenheim, Germany, in 2007.</p>
 <p>Note: The paper by Piepho says "The trial had 30 rows and 36
   columns. Plot widths were 1.90 m along rows and 3.73 m along columns."
   This is confirmed by the variograms in Figure 1.
   It is not clear what "along rows" and "along columns" means in
-  English.</p>  
+  English.</p>
 <p>However, the SAS code supplement to the paper, called
   "PBR_1654_sm_example1.sas", has row=1-36, col=1-30.</p>
     </div>
@@ -102,11 +88,11 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">piepho.barley.uniformity</span><span class="op">)</span> </span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">piepho.barley.uniformity</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">36</span><span class="op">*</span><span class="fl">3.73</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">30</span><span class="op">*</span><span class="fl">1.90</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"piepho.barley.uniformity.csv"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -125,12 +111,12 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Match Piepho table 3, footnote 4: .9671, .9705 for col,row correlation</span></span></span>
 <span class="r-in"><span>    <span class="co"># Note these parameters are basically at the boundary of the parameter</span></span></span>
 <span class="r-in"><span>    <span class="co"># space. Questionable fit.</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/piepho.cocksfoot.html b/reference/piepho.cocksfoot.html
index f5ef5eb9..7b2fb030 100644
--- a/reference/piepho.cocksfoot.html
+++ b/reference/piepho.cocksfoot.html
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years</h1>
-      
+
       <div class="d-none name"><code>piepho.cocksfoot.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>date</code></dt>
 <dd><p>heading date (days from April 1)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -95,7 +81,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">piepho.cocksfoot</span><span class="op">)</span></span></span>
@@ -133,10 +119,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">#  0.10595661 -0.05298523  0.08228274 -0.09629696 -0.11045540  0.29637268 </span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -145,14 +131,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/polson.safflower.uniformity.html b/reference/polson.safflower.uniformity.html
index 7819dc91..b8cfeea3 100644
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+++ b/reference/polson.safflower.uniformity.html
@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
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-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of safflower</h1>
-      
+
       <div class="d-none name"><code>polson.safflower.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (grams)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -103,7 +89,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -111,7 +97,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">polson.safflower.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">189</span><span class="op">/</span><span class="fl">110</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"polson.safflower.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -137,10 +123,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># X = b K1 / ((1-b) K2)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Polson suggests optimum plot size 2.75 to 11 basic plots</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +135,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/ratkowsky.onions.html b/reference/ratkowsky.onions.html
index 4d73fa12..df768115 100644
--- a/reference/ratkowsky.onions.html
+++ b/reference/ratkowsky.onions.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Onion yields for different densities at two locations"><title>Onion yields for different densities at two locations — ratkowsky.onions • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Onion yields for different densities at two locations — ratkowsky.onions"><meta property="og:description" content="Onion yields for different densities at two locations"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Onion yields for different densities at two locations — ratkowsky.onions • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Onion yields for different densities at two locations — ratkowsky.onions"><meta name="description" content="Onion yields for different densities at two locations"><meta property="og:description" content="Onion yields for different densities at two locations"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Onion yields for different densities at two locations</h1>
-      
+
       <div class="d-none name"><code>ratkowsky.onions.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt>loc</dt>
 <dd><p>location, Purnong Landing or Virginia</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -91,7 +77,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ratkowsky.onions</span><span class="op">)</span></span></span>
@@ -108,10 +94,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>               main<span class="op">=</span><span class="st">"ratkowski.onions"</span>,ylab<span class="op">=</span><span class="st">"Inverse yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">foo</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">pred</span> <span class="op">~</span> <span class="va">density</span>, data<span class="op">=</span><span class="va">dat</span>, group<span class="op">=</span><span class="va">loc</span>, type<span class="op">=</span><span class="st">'l'</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/reid.grasses.html b/reference/reid.grasses.html
index 1728a517..23c3cbe7 100644
--- a/reference/reid.grasses.html
+++ b/reference/reid.grasses.html
@@ -1,58 +1,44 @@
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+  conducted over 3 years."><meta property="og:description" content="Yields of four grasses for a wide range of nitrogen fertilizer,
+  conducted over 3 years."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Yields of four grasses for a wide range of nitrogen fertilizer</h1>
-      
+
       <div class="d-none name"><code>reid.grasses.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>protein</code></dt>
 <dd><p>protein content</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>D. Reid (1985).
   A comparison of the yield responses of four grasses to a wide range of nitrogen application rates.
-  <em>J. Agric. Sci.</em>, 105, 381-387. Table 1 &amp; 3.  
+  <em>J. Agric. Sci.</em>, 105, 381-387. Table 1 &amp; 3.
   https://doi.org/10.1017/S0021859600056434</p>
     </div>
     <div class="section level2">
@@ -107,7 +93,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">reid.grasses</span><span class="op">)</span></span></span>
@@ -152,10 +138,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="fu">augPred</span><span class="op">(</span><span class="va">m1</span>, level<span class="op">=</span><span class="fl">0</span><span class="op">:</span><span class="fl">1</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"reid.grasses - observed/predicted data"</span><span class="op">)</span> <span class="co"># only works with groupedData object</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span> <span class="co"># if(0)  </span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index 2a598630..b68b2792 100644
--- a/reference/riddle.wheat.html
+++ b/reference/riddle.wheat.html
@@ -1,56 +1,42 @@
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Modified Latin Square experiments of wheat</h1>
-      
+
       <div class="d-none name"><code>riddle.wheat.Rd</code></div>
     </div>
 
@@ -86,13 +72,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column (group of rows)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>There was an experiment for "Baart" varieties in 1939 and another
   experiment for "White Federation" varieties in 1939. The experiments
-  were repeated in 1940.</p>  
+  were repeated in 1940.</p>
 <p>The experimental design is a Modified Latin Square.
   There are 5 reps, horizontal.
   There are 5 "columns". Each rep*column contains multiple plots
@@ -117,7 +103,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">riddle.wheat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">riddle.wheat</span></span></span>
@@ -135,15 +121,15 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Show the huge variaion between reps</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">yrexpt</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/paste.html" class="external-link">paste0</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">year</span>, <span class="va">dat</span><span class="op">$</span><span class="va">expt</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">rep</span><span class="op">|</span><span class="va">yrexpt</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, out1<span class="op">=</span><span class="va">col</span>, main<span class="op">=</span><span class="st">"riddle.wheat"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">rep</span><span class="op">|</span><span class="va">yrexpt</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, out1<span class="op">=</span><span class="va">col</span>, main<span class="op">=</span><span class="st">"riddle.wheat"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">5</span><span class="op">*</span><span class="fl">16</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">30</span><span class="op">*</span><span class="fl">.5</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="co"># Show the randomization was the same in each year (but not each expt).</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">strain</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">rep</span><span class="op">|</span><span class="va">yrexpt</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, out1<span class="op">=</span><span class="va">col</span>, main<span class="op">=</span><span class="st">"riddle.wheat"</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">strain</span> <span class="op">~</span> <span class="va">row</span><span class="op">*</span><span class="va">rep</span><span class="op">|</span><span class="va">yrexpt</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, out1<span class="op">=</span><span class="va">col</span>, main<span class="op">=</span><span class="st">"riddle.wheat"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -152,14 +138,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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diff --git a/reference/ridout.appleshoots.html b/reference/ridout.appleshoots.html
index 4ec93801..b0938cb7 100644
--- a/reference/ridout.appleshoots.html
+++ b/reference/ridout.appleshoots.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Root counts for propagated columnar apple shoots."><title>Root counts for propagated columnar apple shoots. — ridout.appleshoots • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Root counts for propagated columnar apple shoots. — ridout.appleshoots"><meta property="og:description" content="Root counts for propagated columnar apple shoots."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Root counts for propagated columnar apple shoots.</h1>
-      
+
       <div class="d-none name"><code>ridout.appleshoots.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>bap</code></dt>
 <dd><p>BAP concentration, numeric</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>There were 270 micropropagated shoots from the columnar apple cultivar
   Trajan.  During the rooting period, shoot tips of length 1.0-1.5 cm were
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ridout.appleshoots</span><span class="op">)</span></span></span>
@@ -184,10 +170,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Restore contrasts</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/options.html" class="external-link">options</a></span><span class="op">(</span><span class="va">oo</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -196,14 +182,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/robinson.peanut.uniformity.html b/reference/robinson.peanut.uniformity.html
index d8cc5ca5..b69ae928 100644
--- a/reference/robinson.peanut.uniformity.html
+++ b/reference/robinson.peanut.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of peanuts in North Carolina in 1939, 1940."><title>Uniformity trial of peanuts — robinson.peanut.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of peanuts — robinson.peanut.uniformity"><meta property="og:description" content="Uniformity trial of peanuts in North Carolina in 1939, 1940."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of peanuts — robinson.peanut.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of peanuts — robinson.peanut.uniformity"><meta name="description" content="Uniformity trial of peanuts in North Carolina in 1939, 1940."><meta property="og:description" content="Uniformity trial of peanuts in North Carolina in 1939, 1940."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of peanuts</h1>
-      
+
       <div class="d-none name"><code>robinson.peanut.uniformity.Rd</code></div>
     </div>
 
@@ -77,18 +63,18 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Two crops of peanuts were grown in North Carolina in 1939 and 1940.
-  A different field was used each year.</p>  
+  A different field was used each year.</p>
 <p>A block of 36 rows 3 feet wide and 200 feet long were harvested in 12.5 foot lengths.</p>
-<p>Field length: 36 plots * 12.5 feet = 200 feet</p>  
-<p>Field width: 16 plots * 3 feet = 48 feet</p>  
+<p>Field length: 36 plots * 12.5 feet = 200 feet</p>
+<p>Field width: 16 plots * 3 feet = 48 feet</p>
 <p>Widening the plot was not as effective as increasing the plot length
   in order to reduce error. This agrees with the results of other
-  uniformity studies.</p>  
+  uniformity studies.</p>
 <p>Assuming 30 percent of the total cost of an experiment is proportional
   to the size of the plots used, the optimum plot size is approximately
   3.2 units.</p>
@@ -106,7 +92,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -119,14 +105,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># 703.7847 787.8125 </span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">200</span><span class="op">/</span><span class="fl">48</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"robinson.peanut.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/roemer.sugarbeet.uniformity.html b/reference/roemer.sugarbeet.uniformity.html
index 1022da8d..52023b69 100644
--- a/reference/roemer.sugarbeet.uniformity.html
+++ b/reference/roemer.sugarbeet.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sugar beets</h1>
-      
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       <div class="d-none name"><code>roemer.sugarbeet.uniformity.Rd</code></div>
     </div>
 
@@ -77,12 +63,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year of experiment</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Roemer p 27:</p>
 <p>Eigene Versuche mit Zuckerrüben, ausgeführt auf dem Neßthaler
   Zuchtfeld des Kaiser-Wilhelm-Institutes, Bromberg, in den Jahren 1916,
@@ -111,7 +97,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   smaller than the errors caused by the experimental technology.</p>
 <p>Field width: 2 plots * 17 m = 34 m</p>
 <p>Field length: 48 plots * 4.17 m = 200 m</p>
-<p>Total area = 34 m * 200 m = 6800 sq m = 6.8 are.</p>  
+<p>Total area = 34 m * 200 m = 6800 sq m = 6.8 are.</p>
 <p>Cochran says: 96 plots, each 1 row x 55.8 ft (17m).
   Two sets (years) 1916 and 1918.</p>
 <p>Data were typed by K.Wright from Roemer (1920).</p>
@@ -133,21 +119,21 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">roemer.sugarbeet.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">roemer.sugarbeet.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="op">(</span><span class="fl">48</span><span class="op">*</span><span class="fl">4.16</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">2</span><span class="op">*</span><span class="fl">17</span><span class="op">)</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"roemer.sugarbeet.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -156,14 +142,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/rothamsted.brussels.html b/reference/rothamsted.brussels.html
index c3dfd06f..1968825b 100644
--- a/reference/rothamsted.brussels.html
+++ b/reference/rothamsted.brussels.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="RCB experiment of brussels sprouts, 9 fertilizer treatments"><title>RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels"><meta property="og:description" content="RCB experiment of brussels sprouts, 9 fertilizer treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of brussels sprouts, 9 fertilizer treatments</h1>
-      
+
       <div class="d-none name"><code>rothamsted.brussels.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>block</code></dt>
 <dd><p>block, 4 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,13 +80,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   <em>Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science</em>, 462, 2119--2143.
+    Engineering Science</em>, 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">rothamsted.brussels</span><span class="op">)</span></span></span>
@@ -110,14 +96,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">bwplot</a></span><span class="op">(</span><span class="va">yield</span><span class="op">~</span><span class="va">trt</span>, <span class="va">dat</span>, main<span class="op">=</span><span class="st">"rothamsted.brussels"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          num<span class="op">=</span><span class="va">trt</span>, out1<span class="op">=</span><span class="va">block</span>, cex<span class="op">=</span><span class="fl">1</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"rothamsted.brussels"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -126,14 +112,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/rothamsted.oats.html b/reference/rothamsted.oats.html
index b1254401..8e8d2732 100644
--- a/reference/rothamsted.oats.html
+++ b/reference/rothamsted.oats.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="RCB experiment of oats, straw and grain, 9 fertilizer treatments"><title>RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats"><meta property="og:description" content="RCB experiment of oats, straw and grain, 9 fertilizer treatments"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats"><meta name="description" content="RCB experiment of oats, straw and grain, 9 fertilizer treatments"><meta property="og:description" content="RCB experiment of oats, straw and grain, 9 fertilizer treatments"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of oats, straw and grain, 9 fertilizer treatments</h1>
-      
+
       <div class="d-none name"><code>rothamsted.oats.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -107,13 +93,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
     <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   <em>Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science</em>, 462, 2119--2143.
+    Engineering Science</em>, 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">rothamsted.oats</span><span class="op">)</span></span></span>
@@ -121,11 +107,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, shorten<span class="op">=</span><span class="cn">FALSE</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"rothamsted.oats"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">straw</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">straw</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, text<span class="op">=</span><span class="va">trt</span>, cex<span class="op">=</span><span class="fl">1</span>, shorten<span class="op">=</span><span class="cn">FALSE</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"rothamsted.oats"</span><span class="op">)</span></span></span>
@@ -163,10 +149,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## 3 None    44.1  75.4</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -175,14 +161,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/ryder.groundnut.html b/reference/ryder.groundnut.html
index 66766b52..b8b381b3 100644
--- a/reference/ryder.groundnut.html
+++ b/reference/ryder.groundnut.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="RCB experiment of groundut, wet and dry yields"><title>RCB experiment of groundut, wet and dry yields — ryder.groundnut • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of groundut, wet and dry yields — ryder.groundnut"><meta property="og:description" content="RCB experiment of groundut, wet and dry yields"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>RCB experiment of groundut, wet and dry yields — ryder.groundnut • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of groundut, wet and dry yields — ryder.groundnut"><meta name="description" content="RCB experiment of groundut, wet and dry yields"><meta property="og:description" content="RCB experiment of groundut, wet and dry yields"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of groundut, wet and dry yields</h1>
-      
+
       <div class="d-none name"><code>ryder.groundnut.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>dry</code></dt>
 <dd><p>dry yield, kg/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -91,13 +77,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>K. Ryder (1981). Field plans: why the biometrician finds them useful,
-  <em>Experimental Agriculture</em>, 17, 243--256.</p>
+  <em>Experimental Agriculture</em>, 17, 243–256.</p>
 <p>https://doi.org/10.1017/S0014479700011601</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">ryder.groundnut</span><span class="op">)</span></span></span>
@@ -112,7 +98,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="co"># Visually.  Note largest positive/negative residuals are adjacent</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">res1</span> <span class="op">~</span> <span class="va">col</span> <span class="op">+</span> <span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">res1</span> <span class="op">~</span> <span class="va">col</span> <span class="op">+</span> <span class="va">row</span>,</span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"ryder.groundnut - residuals"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -123,14 +109,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">[</span><span class="va">dat</span><span class="op">$</span><span class="va">block</span><span class="op">==</span><span class="st">"B3"</span> <span class="op">&amp;</span> <span class="va">dat</span><span class="op">$</span><span class="va">gen</span><span class="op">==</span><span class="st">"B"</span>, <span class="st">"dry"</span><span class="op">]</span> <span class="op">&lt;-</span> <span class="fl">1.4</span></span></span>
 <span class="r-in"><span>  <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">dry</span><span class="op">~</span><span class="va">block</span><span class="op">+</span><span class="va">gen</span>, <span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span><span class="op">$</span><span class="va">res2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/residuals.html" class="external-link">resid</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">res2</span> <span class="op">~</span> <span class="va">col</span><span class="op">+</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">res2</span> <span class="op">~</span> <span class="va">col</span><span class="op">+</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, main<span class="op">=</span><span class="st">"ryder.groundnut"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/salmon.bunt.html b/reference/salmon.bunt.html
index 714bfe6d..72a9e377 100644
--- a/reference/salmon.bunt.html
+++ b/reference/salmon.bunt.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Fungus infection in varieties of wheat"><title>Fungus infection in varieties of wheat — salmon.bunt • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Fungus infection in varieties of wheat — salmon.bunt"><meta property="og:description" content="Fungus infection in varieties of wheat"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Fungus infection in varieties of wheat — salmon.bunt • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Fungus infection in varieties of wheat — salmon.bunt"><meta name="description" content="Fungus infection in varieties of wheat"><meta property="og:description" content="Fungus infection in varieties of wheat"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Fungus infection in varieties of wheat</h1>
-      
+
       <div class="d-none name"><code>salmon.bunt.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>gen</code></dt>
 <dd><p>genotype factor, 10 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -96,7 +82,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>S.C. Salmon, 1938.
   Generalized standard errors for evaluating bunt experiments with wheat.
-  <em>Agronomy Journal</em>, 30, 647--663.  Table 1.
+  <em>Agronomy Journal</em>, 30, 647–663.  Table 1.
   https://doi.org/10.2134/agronj1938.00021962003000080003x</p>
     </div>
     <div class="section level2">
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">salmon.bunt</span><span class="op">)</span></span></span>
@@ -151,10 +137,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># To evaluate wheat, we probably want to include bunt as a random effect...</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -163,14 +149,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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diff --git a/reference/saunders.maize.uniformity.html b/reference/saunders.maize.uniformity.html
index c9f69cb0..48fc9b6a 100644
--- a/reference/saunders.maize.uniformity.html
+++ b/reference/saunders.maize.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of maize in South Africa"><title>Uniformity trial of maize in South Africa — saunders.maize.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of maize in South Africa — saunders.maize.uniformity"><meta property="og:description" content="Uniformity trial of maize in South Africa"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of maize in South Africa</h1>
-      
+
       <div class="d-none name"><code>saunders.maize.uniformity.Rd</code></div>
     </div>
 
@@ -77,26 +63,26 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>These two maize uniformity trials were conducted by Potchefstroom
   Experiment Station, South Africa.</p>
 <p>Each harvested unit was a plot of 10 plants, planted 3 feet by 3 feet
   in individual hills.</p>
-  
+
 <p>Dataset for 1928-1929 experiment</p>
-<p>Rows 41-43 are missing.</p>  
-<p>Field width: 4 plots * 10 yards = 40 yards</p>  
+<p>Rows 41-43 are missing.</p>
+<p>Field width: 4 plots * 10 yards = 40 yards</p>
 <p>Field length : 250 plots * 1 yard = 250 yards</p>
-  
-<p>Dataset for 1929-30 experiment</p>  
+
+<p>Dataset for 1929-30 experiment</p>
 <p>Row 255 is missing</p>
-<p>There is an obvious edge effect in the first column.</p>  
-<p>Field width: 5 plots * 20 yards = 100 yards</p>  
+<p>There is an obvious edge effect in the first column.</p>
+<p>Field width: 5 plots * 20 yards = 100 yards</p>
 <p>Field length: 300 plots * 1 yard = 300 yards</p>
 <p>Two possible outliers in the 1929-30 data were verified as being
   correctly transcribed from the source document.</p>
@@ -119,7 +105,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">saunders.maize.uniformity</span><span class="op">)</span></span></span>
@@ -127,17 +113,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1929</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1929</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">250</span><span class="op">/</span><span class="fl">40</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"saunders.maize.uniformity 1928-29"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">year</span><span class="op">==</span><span class="fl">1930</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">300</span><span class="op">/</span><span class="fl">100</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"saunders.maize.uniformity 1929-30"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -146,14 +132,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index c0b75822..575b6382 100644
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+++ b/reference/sawyer.multi.uniformity.html
@@ -1,56 +1,42 @@
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of wheat, swedes, oats, 3 years on the same land</h1>
-      
+
       <div class="d-none name"><code>sawyer.multi.uniformity.Rd</code></div>
     </div>
 
@@ -92,24 +78,24 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>rootct</code></dt>
 <dd><p>swedes root count</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>An experiment conducted at Rothamsted, England, in 1925-1927, in
   Sawyers Field.</p>
 <p>Row 6, column 1 was not planted in any year.</p>
-<p>1925: Wheat was harvested</p>  
+<p>1925: Wheat was harvested</p>
 <p>Row 1, column 1 had partially missing data for the wheat values in
-  1925 and was not used in the Rothamsted summary statistics on page 155.</p>  
-<p>1926: Swedes were harvested</p>  
-<p>1927: Oats were harvested</p>  
+  1925 and was not used in the Rothamsted summary statistics on page 155.</p>
+<p>1926: Swedes were harvested</p>
+<p>1927: Oats were harvested</p>
 <p>Note the summaries statistics at the bottom of the page in each report
   are calibrated to ACRES.</p>
-<p>Field width: 8 plots * 22 feet = 528 feet</p>  
-<p>Field length: 6 plots * 22 feet = 396 feet</p>  
+<p>Field width: 8 plots * 22 feet = 528 feet</p>
+<p>Field length: 6 plots * 22 feet = 396 feet</p>
 <p>The field is 8 plots wide, 6 plots long.  The plots are drawn in the
   source documents as squares .098 acres each (1 chain = 66 feet on each
   side).</p>
@@ -127,7 +113,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   Lawes Agricultural Trust, p. 154-155.
   https://www.era.rothamsted.ac.uk/eradoc/book/84</p>
 <p>Rothamsted Experimental Station, Report 1927-1928.
-  Lawes Agricultural Trust, p. 153.  
+  Lawes Agricultural Trust, p. 153.
   https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1927-28-131-175</p>
     </div>
     <div class="section level2">
@@ -136,11 +122,11 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
   The influence of soil heterogeneity on the growth and yield of
   successive crops.
   Jour of Agricultural Science, 18, 163-185.
-  https://archive.org/stream/in.ernet.dli.2015.25895/2015.25895.Journal-Of-Agricultural-Science-Vol-xviii-1928#page/n175</p>  
+  https://archive.org/stream/in.ernet.dli.2015.25895/2015.25895.Journal-Of-Agricultural-Science-Vol-xviii-1928#page/n175</p>
 <p>McCullagh, P. and Clifford, D., (2006).
   Evidence for conformal invariance of crop yields,
   Proceedings of the Royal Society A: Mathematical, Physical and
-    Engineering Science, 462, 2119--2143.
+    Engineering Science, 462, 2119–2143.
   https://doi.org/10.1098/rspa.2006.1667</p>
 <p>Winifred A. Mackenzie. (1926)
   Note on a remarkable correlation between grain and straw, obtained at
@@ -151,7 +137,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="st">"sawyer.multi.uniformity"</span><span class="op">)</span></span></span>
@@ -159,17 +145,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># The field plan shows square plots</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span> <span class="va">year</span><span class="op">==</span><span class="fl">1925</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"sawyer.multi.uniformity - 1925 wheat grain yield"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">6</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">)</span><span class="op">)</span> <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">rootwt</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">rootwt</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span> <span class="va">year</span><span class="op">==</span><span class="fl">1926</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"sawyer.multi.uniformity - 1926 root weight of swedes"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">6</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">year</span><span class="op">==</span><span class="fl">1927</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">grain</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span> <span class="va">year</span><span class="op">==</span><span class="fl">1927</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"sawyer.multi.uniformity - 1927 oats grain yield"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="op">(</span><span class="fl">6</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">8</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -187,10 +173,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## pairs(dat[,7:9],</span></span></span>
 <span class="r-in"><span>  <span class="co">##       main="sawyer.multi.uniformity")</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -199,14 +185,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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index 2af88324..8e0283c3 100644
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+++ b/reference/sayer.sugarcane.uniformity.html
@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sugarcane in India, 1932, 1933 &amp; 1934.</h1>
-      
+
       <div class="d-none name"><code>sayer.sugarcane.uniformity.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>1932 Experiment, 20 col x 48 row = 960 plots</p>
 <p>Sayer (1936a, page 685): A tonnage Experiment on sugarcane, Co. 205,
@@ -92,46 +78,46 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   numbering 840 such plots in all, were available for statistical
   analysis ; For convenience the data of yields of the first forty rows
   were also considered separately.</p>
-<p>Field width: 20 sections x 30 ft 3 in = 605 feet</p>  
+<p>Field width: 20 sections x 30 ft 3 in = 605 feet</p>
 <p>Field length: 48 rows x 3 feet = 144 feet</p>
 <p>Note that the data from Rothamsted library contains 48 rows, but there
   are some missing values in rows 43-48. This may be why Sayer (1963b)
-  used only 42 rows.</p>  
-<p>----------</p>  
+  used only 42 rows.</p>
+<p>———-</p>
 <p>1933 Experiment, 8 col x 136 row = 1088 plots</p>
 <p>Sayer (1936a, page 688). The experiment was conducted in 1933 at
   Meghaul (Monghyr). A road was cut through the field, creating blocks
-  480 ft x 315 ft and 480 ft x 93 ft. (See Plate XLI). 
+  480 ft x 315 ft and 480 ft x 93 ft. (See Plate XLI).
   There were 136 rows, 3 feet apart, 480 feet long each.  It required 16
   days to harvest the 1088 plots. Each plot was 1/242 acre. The authors
   conclude that long narrow plots of 12/242 to 16/242 acre would be
-  best.</p>  
-<p>Field width: 8 plots * 60 feet = 480 feet</p>  
+  best.</p>
+<p>Field width: 8 plots * 60 feet = 480 feet</p>
 <p>Field length: 136 rows * 3 feet = 408 feet</p>
-<p>----------</p>
-<p>1934 Experiment, 8 col x 121 row = 968 plots</p>  
+<p>———-</p>
+<p>1934 Experiment, 8 col x 121 row = 968 plots</p>
 <p>This experiment was conducted at the New Area, Pusa.  The experiment
   was laid out in 6 blocks, each separated by a 3-foot bund.  The
   cutting of the canes began in Jan 1934, taking 24 days. (An earthquake
   15 January delayed harvesting).
   Conclusion: Variation is reduced by increasing the plot size up to
-  9/242 acre.</p>  
-<p>Field width: 8 plots * 60 feet = 480 feet</p>  
+  9/242 acre.</p>
+<p>Field width: 8 plots * 60 feet = 480 feet</p>
 <p>Field length: 121 rows * 3 feet = 363 feet</p>
-  
+
 <p>The 1932 data was made available with special help from the staff at
   Rothamsted Research Library.</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>1932 Data</p>
-<p>Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.</p>  
-<p>1933 Data</p>  
+<p>Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.</p>
+<p>1933 Data</p>
 <p>Wynne Sayer, M. Vaidyanathan and S. Subrammonia Iyer (1936a).
   Ideal size and shape of sugar-cane experimental plots based upon tonnage experiments with Co 205 and Co 213 conducted in Pusa.
   Indian J. Agric. Sci., 1936, 6, 684-714. Appendix, page 712.
-  https://archive.org/details/in.ernet.dli.2015.271737</p>  
-<p>1934 data</p>  
+  https://archive.org/details/in.ernet.dli.2015.271737</p>
+<p>1934 data</p>
 <p>Wynne Sayer and Krishna Iyer.  (1936b).
   On some of the factors that influence the error of field experiments with special reference to sugar cane.
   Indian J. Agric. Sci., 1936, 6, 917-929. Appendix, page 927.
@@ -144,7 +130,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -170,18 +156,18 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat33</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat33</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">408</span><span class="op">/</span><span class="fl">480</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"sayer.sugarcane.uniformity 1933"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat34</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat34</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">363</span><span class="op">/</span><span class="fl">480</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"sayer.sugarcane.uniformity 1934"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -190,14 +176,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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diff --git a/reference/senshu.rice.html b/reference/senshu.rice.html
index f5c0336c..d8aa2ddc 100644
--- a/reference/senshu.rice.html
+++ b/reference/senshu.rice.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Response of rice to solar radiation and temperature"><title>Multi-environment trial of rice, with solar radiation and temperature — senshu.rice • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of rice, with solar radiation and temperature — senshu.rice"><meta property="og:description" content="Response of rice to solar radiation and temperature"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of rice, with solar radiation and temperature — senshu.rice • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of rice, with solar radiation and temperature — senshu.rice"><meta name="description" content="Response of rice to solar radiation and temperature"><meta property="og:description" content="Response of rice to solar radiation and temperature"><meta property="og:image" content="/logo.png"></head><body>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of rice, with solar radiation and temperature</h1>
-      
+
       <div class="d-none name"><code>senshu.rice.Rd</code></div>
     </div>
 
@@ -82,7 +68,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield t/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -104,7 +90,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -137,10 +123,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>     xlab<span class="op">=</span><span class="st">"Minimum temperature"</span>, ylab<span class="op">=</span><span class="st">"Yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/lines.html" class="external-link">lines</a></span><span class="op">(</span><span class="fl">17</span><span class="op">:</span><span class="fl">32</span>, <span class="fu"><a href="https://rdrr.io/r/stats/predict.html" class="external-link">predict</a></span><span class="op">(</span><span class="va">m2</span>, new<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span>mint<span class="op">=</span><span class="fl">17</span><span class="op">:</span><span class="fl">32</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/abline.html" class="external-link">abline</a></span><span class="op">(</span>v<span class="op">=</span><span class="va">ci</span>, col<span class="op">=</span><span class="st">"blue"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -149,14 +135,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/shafi.tomato.uniformity.html b/reference/shafi.tomato.uniformity.html
index 7c29305c..05815921 100644
--- a/reference/shafi.tomato.uniformity.html
+++ b/reference/shafi.tomato.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of tomato in India"><title>Uniformity trial of tomato — shafi.tomato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of tomato — shafi.tomato.uniformity"><meta property="og:description" content="Uniformity trial of tomato in India"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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 </nav><div class="container template-reference-topic">
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of tomato</h1>
-      
+
       <div class="d-none name"><code>shafi.tomato.uniformity.Rd</code></div>
     </div>
 
@@ -74,12 +60,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>The experiment was conducted at the Regional Research Station Faculty
-  of Agriculture, SKUAST-K Wadura Campus during 2006.</p>  
+  of Agriculture, SKUAST-K Wadura Campus during 2006.</p>
 <p>The original data was collected on 1m x 1m plots. The data here are
   aggregated 2m x 2m plots.</p>
 <p>Field length: 20 row * 2 m = 40 m</p>
@@ -101,19 +87,19 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">shafi.tomato.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">shafi.tomato.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">40</span><span class="op">/</span><span class="fl">20</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"shafi.tomato.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -122,14 +108,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/shafii.rapeseed.html b/reference/shafii.rapeseed.html
index 6e87ca79..6e1ad7ea 100644
--- a/reference/shafii.rapeseed.html
+++ b/reference/shafii.rapeseed.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Rapeseed yield multi-environment trial, 6 genotypes, 3 years, 14 loc, 3 rep"><title>Multi-environment trial of rapeseed in U.S. — shafii.rapeseed • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of rapeseed in U.S. — shafii.rapeseed"><meta property="og:description" content="Rapeseed yield multi-environment trial, 6 genotypes, 3 years, 14 loc, 3 rep"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of rapeseed in U.S.</h1>
-      
+
       <div class="d-none name"><code>shafii.rapeseed.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -98,7 +84,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   Analysis of Genotype-by-Environment Interaction Using the
   Additive Main Effects and Multiplicative Interaction Model
   and Stability Estimates.
-  JABES, 3, 335--345.
+  JABES, 3, 335–345.
   https://doi.org/10.2307/1400587</p>
     </div>
     <div class="section level2">
@@ -158,7 +144,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -167,14 +153,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/sharma.met.html b/reference/sharma.met.html
index 56ae37a8..d451b683 100644
--- a/reference/sharma.met.html
+++ b/reference/sharma.met.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial"><title>Multi-environment trial — sharma.met • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial — sharma.met"><meta property="og:description" content="Multi-environment trial"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial — sharma.met • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial — sharma.met"><meta name="description" content="Multi-environment trial"><meta property="og:description" content="Multi-environment trial"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial</h1>
-      
+
       <div class="d-none name"><code>sharma.met.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -102,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">sharma.met</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">sharma.met</span></span></span>
@@ -153,10 +139,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/names.html" class="external-link">names</a></span><span class="op">(</span><span class="va">sigma2i</span><span class="op">)</span><span class="op">[</span><span class="fl">1</span><span class="op">]</span> <span class="op">&lt;-</span> <span class="st">"A"</span></span></span>
 <span class="r-in"><span>  <span class="va">sigma2i</span> <span class="co"># shifted from m1er because variation from reps was swept out</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -165,14 +151,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/shaw.oats.html b/reference/shaw.oats.html
index 1f594f17..c7915631 100644
--- a/reference/shaw.oats.html
+++ b/reference/shaw.oats.html
@@ -1,58 +1,44 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of oats in India</h1>
-      
+
       <div class="d-none name"><code>shaw.oats.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield of oats, pounds per plot</p></dd>
 
-  
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 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -112,7 +98,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">shaw.oats</span><span class="op">)</span></span></span>
@@ -140,10 +126,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">year</span><span class="op">*</span><span class="va">env</span><span class="op">*</span><span class="va">block</span><span class="op">*</span><span class="va">gen</span> <span class="op">-</span> <span class="va">year</span><span class="op">:</span><span class="va">env</span><span class="op">:</span><span class="va">block</span><span class="op">:</span><span class="va">gen</span>, <span class="va">dat</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -152,14 +138,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/siao.cotton.uniformity.html b/reference/siao.cotton.uniformity.html
index 0516f060..8e3859e8 100644
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+++ b/reference/siao.cotton.uniformity.html
@@ -1,56 +1,42 @@
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of cotton in China</h1>
-      
+
       <div class="d-none name"><code>siao.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -77,36 +63,36 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>crop</code></dt>
 <dd><p>crop trial number</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>1930 test</p>
 <p>A blank test carried out at Provincial Cotton Station at Yuyao,
   Chekiang, China. There were 200 rows, 24 feet long, 1 foot apart,
   planted in a single series. Seed sown in drills, thinned to 8 inches
-  plant-to-plant, 30 plants on one row. 
-  Appendix Table I, Actual yield of 200 rows of 1930 test.</p>  
-<p>1931 test A</p>  
+  plant-to-plant, 30 plants on one row.
+  Appendix Table I, Actual yield of 200 rows of 1930 test.</p>
+<p>1931 test A</p>
 <p>Same piece of land, same culture, same fertilization as previous year.
   Yields were much lower due to  weather.
-  Appendix Table II, Actual yield of 200 rows of 1931 test.</p>  
-<p>1931 test B</p>  
+  Appendix Table II, Actual yield of 200 rows of 1931 test.</p>
+<p>1931 test B</p>
 <p>There were 24 long ridges of cotton. On each ridge were 3 rows 1.2
   feet apart (so rows were 3.6 feet wide).
   Each ridge was cut into 12 sections 16.66 feet long with plants one
   foot apart. Siao notes that the yield of the border plots are lower
   than of the inner plots. The correlation between yield and the number
-  of plants in the plot is only .09.  
-  Appendix Table III, Actual yield of 264 rows of 1931 test (12 col, 22 row).</p>  
-<p>1932 test</p>  
+  of plants in the plot is only .09.
+  Appendix Table III, Actual yield of 264 rows of 1931 test (12 col, 22 row).</p>
+<p>1932 test</p>
 <p>Another 200 rows 24 feet long were planted with same cultural
   practice as 1930 test. Weather was unfavorable.
   Appendix Table IV, Actual yield of 194 rows of 1932 test.</p>
-<p>A "catty" is 1.33 pounds (Love &amp; Reisner).</p>  
-<p>A "mou" is 1/6 acre (Siao page 12).</p>  
+<p>A "catty" is 1.33 pounds (Love &amp; Reisner).</p>
+<p>A "mou" is 1/6 acre (Siao page 12).</p>
 
 <p>See also "The Cornell-Nanking Story" by Love &amp; Reisner for tangential
   information.</p>
@@ -130,9 +116,9 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    
+
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -141,14 +127,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/silva.cotton.html b/reference/silva.cotton.html
index e744ca01..a00941f6 100644
--- a/reference/silva.cotton.html
+++ b/reference/silva.cotton.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Number of cotton bolls for different levels of defoliation.</h1>
-      
+
       <div class="d-none name"><code>silva.cotton.Rd</code></div>
     </div>
 
@@ -93,11 +79,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
 <dd><p>weight of bolls</p></dd>
 
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Data come from a greenhouse experiment with cotton plants. Completely
   randomized design with 5 replicates, 2 plants per pot.</p>
@@ -125,7 +111,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>Zeviani, W. M., Ribeiro, P. J., Bonat, W. H., Shimakura, S. E., Muniz, J. A. (2014).
   The Gamma-count distribution in the analysis of experimental underdispersed data.
@@ -143,7 +129,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">silva.cotton</span><span class="op">)</span></span></span>
@@ -233,10 +219,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                         diagonal <span class="op">=</span> <span class="st">"qqplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -245,14 +231,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/sinclair.clover.html b/reference/sinclair.clover.html
index 60debd22..695980e2 100644
--- a/reference/sinclair.clover.html
+++ b/reference/sinclair.clover.html
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       <img src="../logo.png" class="logo" alt=""><h1>Clover yields in a factorial fertilizer experiment</h1>
-      
+
       <div class="d-none name"><code>sinclair.clover.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>S</code></dt>
 <dd><p>sulfur fertilizer kg/ha</p></dd>
 
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+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -99,7 +85,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -160,11 +146,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># snapshot3d(file, "png")</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu">close3d</span><span class="op">(</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
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@@ -173,14 +159,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index 812d6cd7..5eef9e7a 100644
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@@ -1,56 +1,42 @@
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of beans, 2 species in 2 years</h1>
-      
+
       <div class="d-none name"><code>smith.beans.uniformity.Rd</code></div>
     </div>
 
@@ -77,14 +63,14 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
-<p>Trials were conducted in California.</p>  
-<p>In 1955 plots were twice as wide and twice as long as in 1954. 
+
+
+<p>Trials were conducted in California.</p>
+<p>In 1955 plots were twice as wide and twice as long as in 1954.
   Red Kidney is a bush variety bean, Standard Pink is a viny variety.</p>
 <p>Smith randomly assigned A,B,C,D to plots and used these as 'varieties'
   for calculating ANOVA tables.  Plots were combined side-by-side and
@@ -92,13 +78,13 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   increases in plot sizes.  LSDs were seldom above 200, which was
   considered to be a noticeable difference for the farmers.</p>
 <p>There are four datasets:</p>
-<p>-----</p>
-<p>1954 Experiment 1: Red Kidney.</p>  
+<p>—–</p>
+<p>1954 Experiment 1: Red Kidney.</p>
 <p>1954 Experiment 2: Standard Pink</p>
-<p>Field width: 18 plots * 30 inches = 45 ft</p>  
+<p>Field width: 18 plots * 30 inches = 45 ft</p>
 <p>Field length: 12 plots * 15 ft = 180 ft</p>
-<p>-----</p>  
-<p>1955 Experiment 3: Red Kidney.</p>  
+<p>—–</p>
+<p>1955 Experiment 3: Red Kidney.</p>
 <p>1955 Experiment 4: Standard Pink</p>
 <p>Field width: 16 plots * 2 rows * 30 in = 80 ft</p>
 <p>Field length: 15 plots * 30 ft = 450 ft</p>
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -135,26 +121,26 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu">cv</span><span class="op">(</span><span class="va">dat4</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="st">"desplot"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat1</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat1</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">180</span><span class="op">/</span><span class="fl">45</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"smith.beans.uniformity, expt 1 (true aspect)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat2</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">180</span><span class="op">/</span><span class="fl">45</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"smith.beans.uniformity, expt 2 (true aspect)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat3</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat3</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">450</span><span class="op">/</span><span class="fl">80</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"smith.beans.uniformity, expt 3 (true aspect)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat4</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat4</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">450</span><span class="op">/</span><span class="fl">80</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"smith.beans.uniformity expt 4, (true aspect)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -163,14 +149,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/smith.corn.uniformity.html b/reference/smith.corn.uniformity.html
index 255f7f5c..2a3eb816 100644
--- a/reference/smith.corn.uniformity.html
+++ b/reference/smith.corn.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of corn, 3 years on same ground</h1>
-      
+
       <div class="d-none name"><code>smith.corn.uniformity.Rd</code></div>
     </div>
 
@@ -76,14 +62,14 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, bushels / acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    <p>Data come from the Illinois Experiment Station.</p>  
+    <p>Data come from the Illinois Experiment Station.</p>
 <p>The data values are from Smith (1910) and the field map is from Harris (1920).
   Each plot was 1/10 acre, but the dimensions are not given. Note that
-  1/10 acre is also the area of a square 1 chain (66 feet) on a side.</p>  
+  1/10 acre is also the area of a square 1 chain (66 feet) on a side.</p>
 <p>The following text is abridged from Smith (1910).</p>
 <p>How much variability may we reasonably expect in land that is
   apparently uniform? Some data among the records of the soil plots at
@@ -148,18 +134,18 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Smith, L.H. 1910.
   Plot arrangement for variety experiments with corn.
-  Agronomy Journal, 1, 84--89. Table 1.
+  Agronomy Journal, 1, 84–89. Table 1.
   https://books.google.com/books?id=mQT0AAAAMAAJ&amp;pg=PA84</p>
 <p>Harris, J.A. 1920.
   Practical universality of field heterogeneity as a factor
   influencing plot yields.
-  Journal of Agricultural Research, 19, 279--314. Page 296-297.
+  Journal of Agricultural Research, 19, 279–314. Page 296-297.
   https://books.google.com/books?id=jyEXAAAAYAAJ&amp;pg=PA279</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">smith.corn.uniformity</span><span class="op">)</span></span></span>
@@ -167,7 +153,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/transform.html" class="external-link">transform</a></span><span class="op">(</span><span class="va">dat</span>, year<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">year</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">year</span>,</span></span>
 <span class="r-in"><span>          layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">2</span>,<span class="fl">2</span><span class="op">)</span>, aspect<span class="op">=</span><span class="fl">1</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"smith.corn.uniformity: yield across years 1895-1987"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -183,10 +169,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         xlab<span class="op">=</span><span class="st">"col"</span>,ylab<span class="op">=</span><span class="st">"row"</span>,zlab<span class="op">=</span><span class="st">"yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">close3d</span><span class="op">(</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -195,14 +181,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index b1b6572a..84c88155 100644
--- a/reference/smith.wheat.uniformity.html
+++ b/reference/smith.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of wheat in Australia."><title>Uniformity trial of wheat — smith.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of wheat — smith.wheat.uniformity"><meta property="og:description" content="Uniformity trial of wheat in Australia."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>smith.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -77,25 +63,25 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>ears</code></dt>
 <dd><p>number of ears per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>Experiment was grown in Canberra, Australia, 1934.</p>  
+
+<p>Experiment was grown in Canberra, Australia, 1934.</p>
 <p>The data are the yield of grain per plot and the number of "ears".
-  Each plot was 1 foot long by 0.5 foot.</p>  
+  Each plot was 1 foot long by 0.5 foot.</p>
 <p>Field width: 36 columns x 1 foot = 36 feet.</p>
 <p>Field length: 30 rows x 0.5 foot = 15 feet.</p>
 <p>Notes:</p>
 <p>There are 2 copies of the yield data at Rothamsted library.
   Let Copy A be the one with dark, hand-drawn grid lines, and Copy B be
   the one without hand-drawn grid lines. Both copies are hand-written,
-  likely copied from the original data.</p>  
+  likely copied from the original data.</p>
 <p>For row 4 (from top) column 34: Copy A has yield 164 while Copy B has
   yield 154. The value of 154 appears to be correct, since it leads to
-  the same row and column totals as shown on both Copy A and Copy B.</p>  
+  the same row and column totals as shown on both Copy A and Copy B.</p>
 <p>For row 20, column 28, both Copy A and Copy B show yield 283. This
   appears to be a copy error. We replaced the value 283 by 203, so that
   the row and column totals match the values on both Copy A and Copy B,
@@ -108,7 +94,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   and a plot is 0.5 sq feet.  Multiply by 8 to get 1600 g per 4 sq
   feet. In Smith's paper, the fertility contour map in figure 1 shows
   the high-yielding part of the field having a yield close to
-  "16 d.kg per 4 sq ft", and 16 d.kg = 16 kg = 1600 g.</p>  
+  "16 d.kg per 4 sq ft", and 16 d.kg = 16 kg = 1600 g.</p>
 <p>This data was made available with special help from the staff at
   Rothamsted Research Library.</p>
     </div>
@@ -122,7 +108,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
   An empirical law describing heterogeneity in the yields of
   agricultural crops.
   The Journal of Agricultural Science, volume 28, Issue 1, January
-  1938, pp. 1 - 23. 
+  1938, pp. 1 - 23.
   https://doi.org/10.1017/S0021859600050516</p>
 <p>Peter McCullagh &amp; David Clifford. (2006).
   Evidence for conformal invariance of crop yields.
@@ -133,14 +119,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">smith.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">smith.wheat.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"smith.wheat.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">15</span><span class="op">/</span><span class="fl">30</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -154,10 +140,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                    col<span class="op">=</span><span class="st">"red"</span><span class="op">)</span><span class="op">$</span><span class="va">uni</span></span></span>
 <span class="r-in"><span>  <span class="va">m1</span> <span class="co"># Compare to Smith table I</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -166,14 +152,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/snedecor.asparagus.html b/reference/snedecor.asparagus.html
index 4154010e..8ef4a81c 100644
--- a/reference/snedecor.asparagus.html
+++ b/reference/snedecor.asparagus.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Asparagus yields for different cutting treatments, in 4 years."><title>Asparagus yields for different cutting treatments — snedecor.asparagus • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Asparagus yields for different cutting treatments — snedecor.asparagus"><meta property="og:description" content="Asparagus yields for different cutting treatments, in 4 years."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Asparagus yields for different cutting treatments</h1>
-      
+
       <div class="d-none name"><code>snedecor.asparagus.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, ounces</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">snedecor.asparagus</span><span class="op">)</span></span></span>
@@ -127,7 +113,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co"># Split-plot with asreml</span></span></span>
 <span class="r-in"><span>    <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">trt</span> <span class="op">+</span> <span class="va">year</span> <span class="op">+</span> <span class="va">trt</span><span class="op">:</span><span class="va">year</span>, data<span class="op">=</span><span class="va">dat</span>,</span></span>
 <span class="r-in"><span>                 random <span class="op">=</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="va">block</span><span class="op">:</span><span class="va">trt</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##    effect component std.error z.ratio bound </span></span></span>
 <span class="r-in"><span>    <span class="co">##     block     354.3     405      0.87     P 0.1</span></span></span>
 <span class="r-in"><span>    <span class="co">## block:trt     462.8     256.9    1.8      P 0  </span></span></span>
@@ -180,10 +166,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## ## [4,] 237.2453  837.2751 1279.4378 1364.8446</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -192,14 +178,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/snijders.fusarium.html b/reference/snijders.fusarium.html
index 06c9cf18..1f522443 100644
--- a/reference/snijders.fusarium.html
+++ b/reference/snijders.fusarium.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Infection in wheat by different strains of Fusarium."><title>Fusarium infection in wheat varieties — snijders.fusarium • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Fusarium infection in wheat varieties — snijders.fusarium"><meta property="og:description" content="Infection in wheat by different strains of Fusarium."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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       <img src="../logo.png" class="logo" alt=""><h1>Fusarium infection in wheat varieties</h1>
-      
+
       <div class="d-none name"><code>snijders.fusarium.Rd</code></div>
     </div>
 
@@ -73,11 +59,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>percent infected</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>The data are the percent of leaf area affected by Fusarium head blight,
   averaged over 4-5 reps, for 17 winter wheat genotypes.</p>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Snijders, CHA and Van Eeuwijk, FA. 1991.
   Genotype x strain interactions for resistance to Fusarium head blight
   caused by Fusarium culmorum in winter wheat.
-  Theoretical and Applied Genetics, 81, 239--244. Table 1.
+  Theoretical and Applied Genetics, 81, 239–244. Table 1.
   https://doi.org/10.1007/BF00215729</p>
     </div>
     <div class="section level2">
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -168,11 +154,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># arrows match VanEeuwijk figure 4.  Slight rotation of graph is ignorable.</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">y12</span>, <span class="va">g12</span>, cex<span class="op">=</span><span class="fl">.75</span>, main<span class="op">=</span><span class="st">"snijders.fusarium"</span><span class="op">)</span> <span class="co"># Arrows to genotypes.</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -181,14 +167,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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index eadea576..e2ea84a0 100644
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+++ b/reference/stephens.sorghum.uniformity.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sorghum silage</h1>
-      
+
       <div class="d-none name"><code>stephens.sorghum.uniformity.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, ounces</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -78,21 +64,21 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   Each row harvested in 1-rod (16.5 ft) lengths.
   East side higher yielding than west side.
   Yields are weight (ounces) of green forage each rod-row.
-  Total area harvested: 100*40/12 = 333.33 feet by 20*16.5=330 feet.</p>  
-<p>Field width: 20 plots * 16.5 ft (1 rod) = 330 feet.</p>  
+  Total area harvested: 100*40/12 = 333.33 feet by 20*16.5=330 feet.</p>
+<p>Field width: 20 plots * 16.5 ft (1 rod) = 330 feet.</p>
 <p>Field length: 100 plots * 40 in = 333 feet</p>
     </div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Stephens, Joseph C. 1928.
   Experimental methods and the probable error in field experiments with sorghum.
-  Journal of Agricultural Research, 37, 629--646.
+  Journal of Agricultural Research, 37, 629–646.
   https://naldc.nal.usda.gov/catalog/IND43967516</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -113,17 +99,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">grays</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/grDevices/colorRamp.html" class="external-link">colorRampPalette</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"#d9d9d9"</span>,<span class="st">"#252525"</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d4</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">row2</span><span class="op">*</span><span class="va">col</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">d4</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">row2</span><span class="op">*</span><span class="va">col</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">333</span><span class="op">/</span><span class="fl">330</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"stephens.sorghum.uniformity"</span>,</span></span>
 <span class="r-in"><span>          col.regions<span class="op">=</span><span class="fu">grays</span><span class="op">(</span><span class="fl">3</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          at<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">500</span>,<span class="fl">680</span>,<span class="fl">780</span>,<span class="fl">1000</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Similar to Stephens Figure 7.  North at top.  East at right.</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -132,14 +118,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/steptoe.morex.pheno.html b/reference/steptoe.morex.pheno.html
index f0d4dcaa..1d9af35f 100644
--- a/reference/steptoe.morex.pheno.html
+++ b/reference/steptoe.morex.pheno.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Phenotypic and genotypic data for a barley population of Steptoe x
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     Morex.  There were 150 doubled haploid crosses, evaluated at 223
-    markers.  Phenotypic data wascollected on 8 traits at 16 environments."><title>Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno"><meta property="og:description" content="Phenotypic and genotypic data for a barley population of Steptoe x
+    markers.  Phenotypic data wascollected on 8 traits at 16 environments."><meta property="og:description" content="Phenotypic and genotypic data for a barley population of Steptoe x
     Morex.  There were 150 doubled haploid crosses, evaluated at 223
-    markers.  Phenotypic data wascollected on 8 traits at 16 environments."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex</h1>
-      
+
       <div class="d-none name"><code>steptoe.morex.pheno.Rd</code></div>
     </div>
 
@@ -71,7 +57,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p><code>steptoe.morex.pheno</code> is a data.frame of phenotypic data
   with 2432 observations on 10 variables:</p><dl><dt><code>gen</code></dt>
@@ -105,28 +91,28 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield (Mt/Ha)</p></dd>
 
-  
+
 </dl><p><code>steptoe.morex.geno</code> is a <code>cross</code> object from the
   <code>qtl</code> package with genotypic data of the 223
   markers for the 150 crosses of Steptoe x Morex.</p>
     </div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>As described by Hayes et al (1993), a population of 150 barley doubled
   haploid (DH) lines was developed by the Oregon State University Barley
   Breeding Program for the North American Barley Genome Mapping
-  Project. The parentage of the population is Steptoe / Morex.</p>  
-<p>Steptoe is the dominant feed barley in the northwestern U.S.</p>  
-<p>Morex is the spring U.S. malting quality standard.</p>  
+  Project. The parentage of the population is Steptoe / Morex.</p>
+<p>Steptoe is the dominant feed barley in the northwestern U.S.</p>
+<p>Morex is the spring U.S. malting quality standard.</p>
 <p>Seed from a single head of each parent was used to create the F1, from which a
-  set of 150 lines was developed.</p>  
+  set of 150 lines was developed.</p>
 <p>Phenotypic values for the parents Steptoe and Morex are here:
-  https://wheat.pw.usda.gov/ggpages/SxM/parental_values.html</p>  
+  https://wheat.pw.usda.gov/ggpages/SxM/parental_values.html</p>
 <p>There are 16 locations, The average across locations is in column 17.  Not all
   traits were collected at every location.  At each location, all 150 lines were
-  included in block 1, a random subset of 50 lines was used in block 2.</p>  
+  included in block 1, a random subset of 50 lines was used in block 2.</p>
 <p>The traits are:
   Alpha Amylase (20 Deg Units),
   Diastatic Power (Deg Units),
@@ -134,20 +120,20 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   Lodging (percent),
   Malt Extract (percent),
   Grain Protein (percent),
-  Grain Yield (Mt/Ha).</p>  
+  Grain Yield (Mt/Ha).</p>
 <p>Phenotypic values of the 150 lines in the F1 population are here:
-  https://wheat.pw.usda.gov/ggpages/SxM/phenotypes.html</p>  
+  https://wheat.pw.usda.gov/ggpages/SxM/phenotypes.html</p>
 <p>Each trait is in a different file, in which each block of numbers
-  represents one location.</p>  
+  represents one location.</p>
 <p>The 223-markers Steptoe/Morex base map is here:
   https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.map</p>
 <p>The data for these markers on the 150 lines is
-  https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.mrk</p>  
+  https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.mrk</p>
 <p>These were hand-assembled (e.g. marker distances were cumulated to
   marker positions) into a .csv file which was then imported into
   R using <code><a href="https://rdrr.io/pkg/qtl/man/read.cross.html" class="external-link">qtl::read.cross</a></code>.  The class was manually changed from
-  c('bc','cross') to c('dh','cross').</p>  
-<p>The marker data is coded as A = Steptoe, B = Morex, - = missing.</p>  
+  c('bc','cross') to c('dh','cross').</p>
+<p>The marker data is coded as A = Steptoe, B = Morex, - = missing.</p>
 <p>The pedigrees for the 150 lines are found here:
   https://wheat.pw.usda.gov/ggpages/SxM/pedigrees.html</p>
 <p>Data provided by the United States Department of Agriculture.</p>
@@ -164,7 +150,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
   J. Franckowiak, D. Rasmusson, M. Sorrells, S.E. Ullrich, and others. 1993.
   Quantitative trait locus effects and environmental interaction in a sample of
   North American barley germplasm.
-  <em>Theoretical and Applied Genetics</em>, 87, 392--401.
+  <em>Theoretical and Applied Genetics</em>, 87, 392–401.
   https://doi.org/10.1007/BF01184929</p>
 <p>Ignacio Romagosa, Steven E. Ullrich, Feng Han, Patrick M. Hayes. 1996.
   Use of the additive main effects and multiplicative interaction model
@@ -184,7 +170,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">steptoe.morex.pheno</span><span class="op">)</span></span></span>
@@ -249,10 +235,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">#     6     ABC169B     64.8       CDO497     67.5 -0.089  0.001   5.6</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -261,14 +247,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/stickler.sorghum.uniformity.html b/reference/stickler.sorghum.uniformity.html
index 977815fc..5bc1847a 100644
--- a/reference/stickler.sorghum.uniformity.html
+++ b/reference/stickler.sorghum.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of sorghum in at Manhattan, Kansas, 1958-1959."><title>Uniformity trial of sorghum — stickler.sorghum.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of sorghum — stickler.sorghum.uniformity"><meta property="og:description" content="Uniformity trial of sorghum in at Manhattan, Kansas, 1958-1959."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of sorghum — stickler.sorghum.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of sorghum — stickler.sorghum.uniformity"><meta name="description" content="Uniformity trial of sorghum in at Manhattan, Kansas, 1958-1959."><meta property="og:description" content="Uniformity trial of sorghum in at Manhattan, Kansas, 1958-1959."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of sorghum</h1>
-      
+
       <div class="d-none name"><code>stickler.sorghum.uniformity.Rd</code></div>
     </div>
 
@@ -77,19 +63,19 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Four sorghum experiments at the Agronomy Farm at Manhattan,
   Kansas. Experiments E1,E2 grown in 1958. Expts E3,E5 grown in 1959.</p>
-<p>Experiment E1.</p>  
-<p>Field width = 20 units * 14 inches = 23.3 ft.</p>  
-<p>Field length = 20 units * 10 feet = 200 feet.</p>  
-<p>Experiment E2-E3.</p>  
-<p>Field width = 20 units * 40 inches = 73 feet</p>  
+<p>Experiment E1.</p>
+<p>Field width = 20 units * 14 inches = 23.3 ft.</p>
+<p>Field length = 20 units * 10 feet = 200 feet.</p>
+<p>Experiment E2-E3.</p>
+<p>Field width = 20 units * 40 inches = 73 feet</p>
 <p>Field length = 20 units * 5 ft = 100 feet.</p>
     </div>
     <div class="section level2">
@@ -106,7 +92,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">stickler.sorghum.uniformity</span><span class="op">)</span></span></span>
@@ -116,14 +102,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/subset.html" class="external-link">subset</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">expt</span><span class="op">!=</span><span class="st">"E1"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">expt</span><span class="op">==</span><span class="st">"E1"</span>,</span></span>
 <span class="r-in"><span>          <span class="co">#cex=1,text=yield, shorten="none",</span></span></span>
 <span class="r-in"><span>          xlab<span class="op">=</span><span class="st">"row"</span>,ylab<span class="op">=</span><span class="st">"range"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">10</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">14</span><span class="op">/</span><span class="fl">12</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"stickler.sorghum.uniformity: expt E1"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
 <span class="r-in"><span>          subset<span class="op">=</span><span class="va">expt</span><span class="op">!=</span><span class="st">"E1"</span>,</span></span>
 <span class="r-in"><span>          xlab<span class="op">=</span><span class="st">"row"</span>,ylab<span class="op">=</span><span class="st">"range"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">5</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">20</span><span class="op">*</span><span class="fl">44</span><span class="op">/</span><span class="fl">12</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
@@ -136,10 +122,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/tapply.html" class="external-link">tapply</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span>, <span class="va">dat</span><span class="op">$</span><span class="va">expt</span>, <span class="va">cv</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># 35.74653 11.55062 11.97011 14.11389</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -148,14 +134,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/stirret.borers.html b/reference/stirret.borers.html
index a461ea69..dc6e0a57 100644
--- a/reference/stirret.borers.html
+++ b/reference/stirret.borers.html
@@ -1,56 +1,42 @@
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Corn borer control by application of fungal spores.</h1>
-      
+
       <div class="d-none name"><code>stirret.borers.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>count2</code></dt>
 <dd><p>count of borers on October 19</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,12 +74,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Stirrett, George M and Beall, Geoffrey and Timonin, M. (1937).
   A field experiment on the control of the European corn borer, Pyrausta
   nubilalis Hubn, by Beauveria bassiana Vuill.
-  <em>Sci. Agric.</em>, 17, 587--591.  Table 2.</p>
+  <em>Sci. Agric.</em>, 17, 587–591.  Table 2.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">stirret.borers</span><span class="op">)</span></span></span>
@@ -115,10 +101,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">##  trtBoth trtEarly  trtLate  trtNone </span></span></span>
 <span class="r-in"><span>  <span class="co">## 47.86667 62.93333 40.93333 61.13333 </span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -127,14 +113,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/streibig.competition.html b/reference/streibig.competition.html
index d99fb914..9561ff27 100644
--- a/reference/streibig.competition.html
+++ b/reference/streibig.competition.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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-  planting rates."><title>Competition experiment between barley and sinapis. — streibig.competition • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Competition experiment between barley and sinapis. — streibig.competition"><meta property="og:description" content="Competition experiment between barley and sinapis, at different
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Competition experiment between barley and sinapis.</h1>
-      
+
       <div class="d-none name"><code>streibig.competition.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>sdwt</code></dt>
 <dd><p>sinapis dry weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -111,7 +97,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -142,10 +128,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/lines.html" class="external-link">lines</a></span><span class="op">(</span><span class="va">pred</span><span class="op">~</span><span class="va">x</span>, data<span class="op">=</span><span class="va">newbb</span>, col<span class="op">=</span><span class="va">bb</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -154,14 +140,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/strickland.apple.uniformity.html b/reference/strickland.apple.uniformity.html
index ad7a6cc9..d0f5f256 100644
--- a/reference/strickland.apple.uniformity.html
+++ b/reference/strickland.apple.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial in apple in Australia"><title>Uniformity trial in apple — strickland.apple.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial in apple — strickland.apple.uniformity"><meta property="og:description" content="Uniformity trial in apple in Australia"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial in apple — strickland.apple.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial in apple — strickland.apple.uniformity"><meta name="description" content="Uniformity trial in apple in Australia"><meta property="og:description" content="Uniformity trial in apple in Australia"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
-      <ul class="navbar-nav"><li class="nav-item">
-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
-     
-  </a>
-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial in apple</h1>
-      
+
       <div class="d-none name"><code>strickland.apple.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per tree, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -96,19 +82,19 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">strickland.apple.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">strickland.apple.uniformity</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"strickland.apple.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">18</span><span class="op">/</span><span class="fl">11</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -117,14 +103,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/strickland.grape.uniformity.html b/reference/strickland.grape.uniformity.html
index 28144406..f7dd9894 100644
--- a/reference/strickland.grape.uniformity.html
+++ b/reference/strickland.grape.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of grape</h1>
-      
+
       <div class="d-none name"><code>strickland.grape.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per vine, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -105,7 +91,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">strickland.grape.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"strickland.grape.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">31</span><span class="op">*</span><span class="fl">8</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">5</span><span class="op">*</span><span class="fl">10</span><span class="op">)</span> <span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
@@ -120,10 +106,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">#  0   5 </span></span></span>
 <span class="r-in"><span>  <span class="co"># 25 100 </span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -132,14 +118,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/strickland.peach.uniformity.html b/reference/strickland.peach.uniformity.html
index f68e2510..0dd19b50 100644
--- a/reference/strickland.peach.uniformity.html
+++ b/reference/strickland.peach.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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+
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of peach</h1>
-      
+
       <div class="d-none name"><code>strickland.peach.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, pounds per tree</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,7 +80,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -105,13 +91,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span><span class="op">/</span><span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span> <span class="co"># 31.1, Strickland has 34.4</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"strickland.peach.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -120,14 +106,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/strickland.tomato.uniformity.html b/reference/strickland.tomato.uniformity.html
index cd3cb113..a7ca7b9a 100644
--- a/reference/strickland.tomato.uniformity.html
+++ b/reference/strickland.tomato.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of tomato in Australia"><title>Uniformity trial of tomato — strickland.tomato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of tomato — strickland.tomato.uniformity"><meta property="og:description" content="Uniformity trial of tomato in Australia"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of tomato — strickland.tomato.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of tomato — strickland.tomato.uniformity"><meta name="description" content="Uniformity trial of tomato in Australia"><meta property="og:description" content="Uniformity trial of tomato in Australia"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
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     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of tomato</h1>
-      
+
       <div class="d-none name"><code>strickland.tomato.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -98,7 +84,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">strickland.tomato.uniformity</span><span class="op">)</span></span></span>
@@ -108,13 +94,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"strickland.tomato.uniformity"</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">6</span><span class="op">*</span><span class="fl">12</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">30</span><span class="op">*</span><span class="fl">4</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -123,14 +109,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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index 678cd3d6..6af241ac 100644
--- a/reference/stroup.nin.html
+++ b/reference/stroup.nin.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="The yield data from an advanced Nebraska Intrastate Nursery (NIN) breeding
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-  trial conducted at Alliance, Nebraska, in 1988/89."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin"><meta name="description" content="The yield data from an advanced Nebraska Intrastate Nursery (NIN) breeding
+  trial conducted at Alliance, Nebraska, in 1988/89."><meta property="og:description" content="The yield data from an advanced Nebraska Intrastate Nursery (NIN) breeding
+  trial conducted at Alliance, Nebraska, in 1988/89."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>RCB experiment of wheat at the Nebraska Intrastate Nursery</h1>
-      
+
       <div class="d-none name"><code>stroup.nin.Rd</code></div>
     </div>
 
@@ -79,11 +65,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt>row</dt>
 <dd><p>row</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Four replicates of 19 released cultivars, 35 experimental
   wheat lines and 2 additional triticale lines were laid out in a 22 row
@@ -124,12 +110,12 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Stroup, Walter W., P Stephen Baenziger, Dieter K Mulitze (1994)
   Removing Spatial Variation from Wheat Yield Trials: A Comparison of Methods.
-  <em>Crop Science</em>, 86:62--66.
+  <em>Crop Science</em>, 86:62–66.
   https://doi.org/10.2135/cropsci1994.0011183X003400010011x</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>Littell, R.C. and Milliken, G.A. and Stroup, W.W. and Wolfinger,
   R.D. 1996. <em>SAS system for mixed models</em>, SAS Institute, Cary, NC.</p>
@@ -152,7 +138,7 @@ <h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">stroup.nin</span><span class="op">)</span></span></span>
@@ -161,7 +147,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Experiment layout. All "Buckskin" plots are near left side and suffer</span></span></span>
 <span class="r-in"><span>  <span class="co"># from poor fertility in two of the reps.</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">47.3</span><span class="op">/</span><span class="fl">26.4</span>, out1<span class="op">=</span><span class="st">"rep"</span>, num<span class="op">=</span><span class="va">gen</span>, cex<span class="op">=</span><span class="fl">0.6</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"stroup.nin - yield heatmap (true shape)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -241,7 +227,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                  na.action<span class="op">=</span><span class="fu">na.method</span><span class="op">(</span>x<span class="op">=</span><span class="st">"omit"</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">preds</span><span class="op">$</span><span class="va">asreml2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/predict.html" class="external-link">predict</a></span><span class="op">(</span><span class="va">as2</span>, data<span class="op">=</span><span class="va">dat</span>, classify<span class="op">=</span><span class="st">"gen"</span><span class="op">)</span><span class="op">$</span><span class="va">pvals</span><span class="op">$</span><span class="va">predicted.value</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">as2</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">as2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##     effect component std.error z.ratio constr</span></span></span>
 <span class="r-in"><span>    <span class="co">## R!variance   48.7      7.155       6.8    pos</span></span></span>
 <span class="r-in"><span>    <span class="co">##   R!xf.cor    0.6555   0.05638    12      unc</span></span></span>
@@ -272,10 +258,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># compare variety effects from different packages</span></span></span>
 <span class="r-in"><span>  <span class="fu">lattice</span><span class="fu">::</span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/splom.html" class="external-link">splom</a></span><span class="op">(</span><span class="va">preds</span><span class="op">[</span>,<span class="op">-</span><span class="fl">1</span><span class="op">]</span>, main<span class="op">=</span><span class="st">"stroup.nin"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -284,14 +270,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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diff --git a/reference/stroup.splitplot.html b/reference/stroup.splitplot.html
index 5fe1e57e..9292daef 100644
--- a/reference/stroup.splitplot.html
+++ b/reference/stroup.splitplot.html
@@ -1,66 +1,52 @@
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+  "><meta property="og:description" content="A simulated dataset of a very simple split-plot experiment, used to
   illustrate the details of calculating predictable functions (broad
   space, narrow space, etc.).
 For example, the density of narrow, intermediate and broad-space
   predictable function for factor level A1 is shown below (html help only)
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-plot experiment of simulated data</h1>
-      
+
       <div class="d-none name"><code>stroup.splitplot.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>a</code></dt>
 <dd><p>whole-plot, 3 levels</p></dd>
 
-  
+
 </dl><p>Used with permission of Walt Stroup.</p>
     </div>
     <div class="section level2">
@@ -101,13 +87,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>Wolfinger, R.D. and Kass, R.E., 2000.
   Nonconjugate Bayesian analysis of variance component models,
-  Biometrics, 56, 768--774.
+  Biometrics, 56, 768–774.
   https://doi.org/10.1111/j.0006-341X.2000.00768.x</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">stroup.splitplot</span><span class="op">)</span></span></span>
@@ -236,10 +222,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                    main<span class="op">=</span><span class="st">"stroup.splitplot"</span>,</span></span>
 <span class="r-in"><span>                    xlab<span class="op">=</span><span class="st">"MCMC model value of predictable function for A1"</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -248,14 +234,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/student.barley.html b/reference/student.barley.html
index f101f5f2..17fe1a32 100644
--- a/reference/student.barley.html
+++ b/reference/student.barley.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield for two varieties of barley grown at 51 locations in the years
-  1901 to 1906."><title>Multi-environment trial of barley — student.barley • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of barley — student.barley"><meta property="og:description" content="Yield for two varieties of barley grown at 51 locations in the years
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+  1901 to 1906."><meta property="og:description" content="Yield for two varieties of barley grown at 51 locations in the years
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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       </ul></div>
 
-    
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley</h1>
-      
+
       <div class="d-none name"><code>student.barley.Rd</code></div>
     </div>
 
@@ -85,7 +71,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>income</code></dt>
 <dd><p>income per acre in shillings, based on yield and quality</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -113,7 +99,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Student. 1923.
   On Testing Varieties of Cereals.
-  <em>Biometrika</em>, 15, 271--293.
+  <em>Biometrika</em>, 15, 271–293.
   https://doi.org/10.1093/biomet/15.3-4.271</p>
     </div>
     <div class="section level2">
@@ -124,7 +110,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">student.barley</span><span class="op">)</span></span></span>
@@ -171,10 +157,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>             control<span class="op">=</span><span class="fu">lmerControl</span><span class="op">(</span>check.nobs.vs.rankZ<span class="op">=</span><span class="st">"ignore"</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -183,14 +169,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/summerby.multi.uniformity.html b/reference/summerby.multi.uniformity.html
index 051ebe51..abbf5527 100644
--- a/reference/summerby.multi.uniformity.html
+++ b/reference/summerby.multi.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of maize, oat, alfalfa, mangolds"><title>Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity"><meta property="og:description" content="Uniformity trial of maize, oat, alfalfa, mangolds"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of maize, oat, alfalfa, mangolds</h1>
-      
+
       <div class="d-none name"><code>summerby.multi.uniformity.Rd</code></div>
     </div>
 
@@ -83,13 +69,13 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>crop</code></dt>
 <dd><p>crop</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Note that the plots for each range are the same across years.
   For example the plots in range R2 are the same in 1922, 1923, 1924,
-  1925.</p>  
+  1925.</p>
 <p>Grown at Macdonald College, Quebec.
   Four ranges of land each 760 x 100 links were used.
   In years 1922-1926, all crops were harvested in 20 link by 20 links
@@ -104,6 +90,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   Data are included here for completeness, but should perhaps not be included.</p>
 <p>The row numbers in this data are based on the figure on page 13 of Summerby.
   Row 1 is at the bottom. There appears to be approximately a blank row between ranges.</p>
+<p>The paper by Summerby has more year/range combinations, but those
+  plots are 20 links by 100 links and are only a single plot wide.</p>
 <p>These data were converted from PDF to png images, then OCR converted
   to text, then hand-checked by K.Wright.</p>
     </div>
@@ -121,14 +109,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">summerby.multi.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">summerby.multi.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu">mutate</span><span class="op">(</span><span class="va">dat</span>, env<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/paste.html" class="external-link">paste</a></span><span class="op">(</span><span class="va">range</span>, <span class="va">year</span>, <span class="va">crop</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">env</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">5</span><span class="op">*</span><span class="fl">20</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">35</span><span class="op">*</span><span class="fl">20</span><span class="op">)</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">env</span>, aspect<span class="op">=</span><span class="op">(</span><span class="fl">5</span><span class="op">*</span><span class="fl">20</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">35</span><span class="op">*</span><span class="fl">20</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"summerby.multi.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Show all ranges for a single year.</span></span></span>
@@ -156,10 +144,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## 15 R5     1926 131714.    131714  </span></span></span>
 <span class="r-in"><span>  <span class="co">## 16 R5     1927      8.62       8.622</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -168,14 +156,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/tai.potato.html b/reference/tai.potato.html
index a9d0e1c6..3389c022 100644
--- a/reference/tai.potato.html
+++ b/reference/tai.potato.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of potato tuber yields"><title>Multi-environment trial of potato — tai.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of potato — tai.potato"><meta property="og:description" content="Multi-environment trial of potato tuber yields"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of potato — tai.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of potato — tai.potato"><meta name="description" content="Multi-environment trial of potato tuber yields"><meta property="og:description" content="Multi-environment trial of potato tuber yields"><meta property="og:image" content="/logo.png"></head><body>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of potato</h1>
-      
+
       <div class="d-none name"><code>tai.potato.Rd</code></div>
     </div>
 
@@ -83,7 +69,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -110,7 +96,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">tai.potato</span><span class="op">)</span></span></span>
@@ -123,10 +109,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># note, st4gi::tai assumes there are replications in the data</span></span></span>
 <span class="r-in"><span><span class="co"># https://github.com/reyzaguirre/st4gi/blob/master/R/tai.R</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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diff --git a/reference/talbot.potato.html b/reference/talbot.potato.html
index c1ddf01d..2a760718 100644
--- a/reference/talbot.potato.html
+++ b/reference/talbot.potato.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield and 14 trait scores for each of 9 potato varieties at 12
-  locations in UK."><title>Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato"><meta property="og:description" content="Yield and 14 trait scores for each of 9 potato varieties at 12
-  locations in UK."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  locations in UK."><meta property="og:description" content="Yield and 14 trait scores for each of 9 potato varieties at 12
+  locations in UK."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of potato in UK, yields and trait scores at 12 locations</h1>
-      
+
       <div class="d-none name"><code>talbot.potato.Rd</code></div>
     </div>
 
@@ -69,7 +55,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p>The <code>talbot.potato.yield</code> dataframe has 126 observations on the following 3 variables.</p><dl><dt><code>gen</code></dt>
 <dd><p>genotype/variety</p></dd>
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>score</code></dt>
 <dd><p>trait score, 1-9</p></dd>
 
-  
+
 </dl><p>The <code>talbot.potato.yield</code> dataframe has 108 observations on the following 3 variables.</p><dl><dt><code>gen</code></dt>
 <dd><p>genotype/variety</p></dd>
 
@@ -90,12 +76,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, t/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>The <code>talbot.potato.yield</code> dataframe contains mean tuber yields
   (t/ha) of 9 varieties of potato at 12 centers in the United Kingdom
   over five years 1983-1987.  The following abbreviations are used for
@@ -107,12 +93,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Mike Talbot and A V Wheelwright, 1989,
   The analysis of genotype x analysis interactions by partial
   least squares regression.
-  Biuletyn Oceny Odmian, 21/22, 19--25.</p>
+  Biuletyn Oceny Odmian, 21/22, 19–25.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -139,10 +125,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">m1</span>, main<span class="op">=</span><span class="st">"talbot.potato - biplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/tesfaye.millet.html b/reference/tesfaye.millet.html
index bcf01693..352f5870 100644
--- a/reference/tesfaye.millet.html
+++ b/reference/tesfaye.millet.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Multi-environment trial of millet"><title>Multi-environment trial of millet — tesfaye.millet • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of millet — tesfaye.millet"><meta property="og:description" content="Multi-environment trial of millet"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of millet — tesfaye.millet • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of millet — tesfaye.millet"><meta name="description" content="Multi-environment trial of millet"><meta property="og:description" content="Multi-environment trial of millet"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of millet</h1>
-      
+
       <div class="d-none name"><code>tesfaye.millet.Rd</code></div>
     </div>
 
@@ -92,20 +78,20 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiments conducted at Bako and Assosa research centers in Ethiopia.
   The data has:
-  4 years, 2 sites = 7 environments, 
-  2-3 reps per trial, 
+  4 years, 2 sites = 7 environments,
+  2-3 reps per trial,
   47 genotypes.</p>
 <p>Tesfaye et al used asreml to fit a GxE model with Factor Analytic
   covariance structure for the GxE part and AR1xAR1 for spatial
-  residuals at each site.</p>  
+  residuals at each site.</p>
 <p>Data in PloS ONE  was published under Creative Commons Attribution License.</p>
     </div>
     <div class="section level2">
@@ -122,7 +108,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">tesfaye.millet</span><span class="op">)</span></span></span>
@@ -136,7 +122,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                rep<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">rep</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                xfac<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, yfac<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">env</span>, main<span class="op">=</span><span class="st">"tesfaye.millet"</span><span class="op">)</span></span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">env</span>, main<span class="op">=</span><span class="st">"tesfaye.millet"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="fu">arrange</span><span class="op">(</span><span class="va">dat</span>, <span class="va">env</span>, <span class="va">xfac</span>, <span class="va">yfac</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># Fixed environment</span></span></span>
@@ -149,13 +135,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>                 random <span class="op">=</span> <span class="op">~</span>  <span class="fu">at</span><span class="op">(</span><span class="va">env</span><span class="op">)</span><span class="op">:</span><span class="va">xfac</span> <span class="op">+</span> <span class="fu">at</span><span class="op">(</span><span class="va">env</span><span class="op">)</span><span class="op">:</span><span class="va">yfac</span> <span class="op">+</span> <span class="va">gen</span><span class="op">:</span><span class="fu">fa</span><span class="op">(</span><span class="va">env</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>                 residual <span class="op">=</span> <span class="op">~</span> <span class="fu">dsum</span><span class="op">(</span> <span class="op">~</span> <span class="fu">ar1</span><span class="op">(</span><span class="va">xfac</span><span class="op">)</span><span class="op">:</span><span class="fu">ar1</span><span class="op">(</span><span class="va">yfac</span><span class="op">)</span><span class="op">|</span><span class="va">env</span><span class="op">)</span> <span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m1</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/update.html" class="external-link">update</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -164,14 +150,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/theobald.barley.html b/reference/theobald.barley.html
index 64890caf..9f4f7840 100644
--- a/reference/theobald.barley.html
+++ b/reference/theobald.barley.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Barley yields at multiple locs, years, fertilizer levels"><title>Multi-environment trial of barley, multiple years &amp; fertilizer levels — theobald.barley • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of barley, multiple years &amp; fertilizer levels — theobald.barley"><meta property="og:description" content="Barley yields at multiple locs, years, fertilizer levels"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of barley, multiple years &amp; fertilizer levels — theobald.barley • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of barley, multiple years &amp; fertilizer levels — theobald.barley"><meta name="description" content="Barley yields at multiple locs, years, fertilizer levels"><meta property="og:description" content="Barley yields at multiple locs, years, fertilizer levels"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley, multiple years &amp; fertilizer levels</h1>
-      
+
       <div class="d-none name"><code>theobald.barley.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>year</code></dt>
 <dd><p>year, 2 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -102,7 +88,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -115,10 +101,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">income</span><span class="op">~</span><span class="va">nitro</span><span class="op">|</span><span class="va">env</span>, <span class="va">dat</span>, groups<span class="op">=</span><span class="va">gen</span>, type<span class="op">=</span><span class="st">'b'</span>,</span></span>
 <span class="r-in"><span>       auto.key<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span>columns<span class="op">=</span><span class="fl">3</span><span class="op">)</span>, main<span class="op">=</span><span class="st">"theobald.barley"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -127,14 +113,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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   </body></html>
 
diff --git a/reference/theobald.covariate.html b/reference/theobald.covariate.html
index cfa7e4df..a6a23485 100644
--- a/reference/theobald.covariate.html
+++ b/reference/theobald.covariate.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn silage, Year * Loc * Variety with covariate</h1>
-      
+
       <div class="d-none name"><code>theobald.covariate.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>chu</code></dt>
 <dd><p>corn heat units, thousand degrees Celsius</p></dd>
 
-  
+
 </dl><p>Used with permission of Chris Theobald.</p>
     </div>
     <div class="section level2">
@@ -93,13 +79,13 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Chris M. Theobald and Mike Talbot and Fabian Nabugoomu, 2002.
   A Bayesian Approach to Regional and Local-Area Prediction From Crop
   Variety Trials.
-  Journ Agric Biol Env Sciences, 7, 403--419.
+  Journ Agric Biol Env Sciences, 7, 403–419.
   https://doi.org/10.1198/108571102230</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">theobald.covariate</span><span class="op">)</span></span></span>
@@ -144,10 +130,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Perfect match (different order?)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/rev.html" class="external-link">rev</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/sort.html" class="external-link">sort</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/Round.html" class="external-link">round</a></span><span class="op">(</span><span class="va">effs</span> <span class="op">-</span> <span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">effs</span><span class="op">)</span>, <span class="fl">2</span><span class="op">)</span><span class="op">)</span><span class="op">)</span> </span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -156,14 +142,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/thompson.cornsoy.html b/reference/thompson.cornsoy.html
index 1c8c62d8..f1cb80b3 100644
--- a/reference/thompson.cornsoy.html
+++ b/reference/thompson.cornsoy.html
@@ -1,62 +1,48 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Average yield of corn and soybeans in five U.S. states
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of corn &amp; soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn &amp; soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy"><meta name="description" content="Average yield of corn and soybeans in five U.S. states
   (IA, IL, IN, MO, OH) during the years 1930-1962.
   Pre-season precipitation and average temperature and precipitation
-  during each month of the growing season is included."><title>Multi-environment trial of corn &amp; soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of corn &amp; soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy"><meta property="og:description" content="Average yield of corn and soybeans in five U.S. states
+  during each month of the growing season is included."><meta property="og:description" content="Average yield of corn and soybeans in five U.S. states
   (IA, IL, IN, MO, OH) during the years 1930-1962.
   Pre-season precipitation and average temperature and precipitation
-  during each month of the growing season is included."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+  during each month of the growing season is included."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of corn &amp; soybean, 1930-1962, with temperature and precipitation</h1>
-      
+
       <div class="d-none name"><code>thompson.cornsoy.Rd</code></div>
     </div>
 
@@ -106,7 +92,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>soy</code></dt>
 <dd><p>soybean yield, bu/acre</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -162,7 +148,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -205,11 +191,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">op</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/graphics/par.html" class="external-link">par</a></span><span class="op">(</span>mfrow<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">2</span>,<span class="fl">2</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu">plot.gam</span><span class="op">(</span><span class="va">m1</span>, residuals<span class="op">=</span><span class="cn">TRUE</span>, se<span class="op">=</span><span class="cn">TRUE</span>, cex<span class="op">=</span><span class="fl">2</span>, main<span class="op">=</span><span class="st">"thompson.cornsoy"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/par.html" class="external-link">par</a></span><span class="op">(</span><span class="va">op</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -218,14 +204,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/tulaikow.wheat.uniformity.html b/reference/tulaikow.wheat.uniformity.html
index 202bc8bf..2f9ca4a9 100644
--- a/reference/tulaikow.wheat.uniformity.html
+++ b/reference/tulaikow.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of winter/spring wheat in Russia"><title>Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity"><meta property="og:description" content="Uniformity trial of winter/spring wheat in Russia"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of winter/spring wheat</h1>
-      
+
       <div class="d-none name"><code>tulaikow.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>season</code></dt>
 <dd><p>winter or summer</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,11 +74,11 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>In the same way, a plot of Poltavka spring wheat was harvested and a plot
   of 240 square sazhen with dimensions of 15 by 16 sazhen was divided
   into plots of 1 square sazhen.</p>
-<p>Winter wheat:</p>  
+<p>Winter wheat:</p>
 <p>Field length: 10 rows * 1 sazhen.</p>
 <p>Field width: 24 columns * 1 sazhen.</p>
 <p>Summer wheat:</p>
-<p>Field length: 16 rows * 1 sazhen.</p>  
+<p>Field length: 16 rows * 1 sazhen.</p>
 <p>Field width: 15 columns * 1 sazhen.</p>
 <p>Note: The Russian word “саж” refers to a unit of
   measurement. Specifically, it represents the sazhen (саже́нь or
@@ -121,22 +107,22 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">tulaikow.wheat.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">tulaikow.wheat.uniformity</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="st">"winter"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="st">"winter"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">10</span><span class="op">/</span><span class="fl">24</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"tulaikow.wheat.uniformity (winter)"</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="st">"summer"</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">season</span><span class="op">==</span><span class="st">"summer"</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">16</span><span class="op">/</span><span class="fl">15</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"tulaikow.wheat.uniformity (summer)"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -145,14 +131,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/turner.herbicide.html b/reference/turner.herbicide.html
index 2335d3ba..f0199e03 100644
--- a/reference/turner.herbicide.html
+++ b/reference/turner.herbicide.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Herbicide control of larkspur"><title>Herbicide control of larkspur — turner.herbicide • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Herbicide control of larkspur — turner.herbicide"><meta property="og:description" content="Herbicide control of larkspur"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Herbicide control of larkspur — turner.herbicide • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Herbicide control of larkspur — turner.herbicide"><meta name="description" content="Herbicide control of larkspur"><meta property="og:description" content="Herbicide control of larkspur"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
+
+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
-    
+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
     </button>
 
     <div id="navbar" class="collapse navbar-collapse ms-3">
-      <ul class="navbar-nav me-auto"><li class="active nav-item">
-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
-  <a href="#" class="nav-link dropdown-toggle" data-bs-toggle="dropdown" role="button" aria-expanded="false" aria-haspopup="true" id="dropdown-articles">Articles</a>
-  <div class="dropdown-menu" aria-labelledby="dropdown-articles">
-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
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-     
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-</li>
+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Herbicide control of larkspur</h1>
-      
+
       <div class="d-none name"><code>turner.herbicide.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>dead</code></dt>
 <dd><p>number of plants killed by herbicide</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">turner.herbicide</span><span class="op">)</span></span></span>
@@ -157,10 +143,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="va">lower</span><span class="op">$</span><span class="va">root</span>, <span class="va">upper</span><span class="op">$</span><span class="va">root</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># 1.92 2.45</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -169,14 +155,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/urquhart.feedlot.html b/reference/urquhart.feedlot.html
index 78f16937..f0d93321 100644
--- a/reference/urquhart.feedlot.html
+++ b/reference/urquhart.feedlot.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Weight gain calves in a feedlot, given three different diets."><title>Weight gain calves in a feedlot — urquhart.feedlot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight gain calves in a feedlot — urquhart.feedlot"><meta property="og:description" content="Weight gain calves in a feedlot, given three different diets."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Weight gain calves in a feedlot — urquhart.feedlot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight gain calves in a feedlot — urquhart.feedlot"><meta name="description" content="Weight gain calves in a feedlot, given three different diets."><meta property="og:description" content="Weight gain calves in a feedlot, given three different diets."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Weight gain calves in a feedlot</h1>
-      
+
       <div class="d-none name"><code>urquhart.feedlot.Rd</code></div>
     </div>
 
@@ -80,12 +66,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>weight2</code></dt>
 <dd><p>slaughter weight</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Calves born in 1975 in 11 different herds entered a feedlot as
   yearlings. Each animal was fed one of three diets with low, medium, or
   high energy. The original sources explored the use of some contrasts
@@ -109,7 +95,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">urquhart.feedlot</span><span class="op">)</span></span></span>
@@ -136,10 +122,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># m1 &lt;- lmer(weight2 ~ -1 + diet + weight1 + (1|herd), data=dat)</span></span></span>
 <span class="r-in"><span>  <span class="co"># summary(m1) # weight1 = 1.2269</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -148,14 +134,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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   </body></html>
 
diff --git a/reference/usgs.herbicides.html b/reference/usgs.herbicides.html
index 8a2aa75a..16dfce0b 100644
--- a/reference/usgs.herbicides.html
+++ b/reference/usgs.herbicides.html
@@ -1,60 +1,46 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Concentrations of selected herbicides and degradation products
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Concentrations of herbicides in streams in the United States — usgs.herbicides • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Concentrations of herbicides in streams in the United States — usgs.herbicides"><meta name="description" content="Concentrations of selected herbicides and degradation products
   determined by laboratory method analysis code GCS for water samples
-  collected from 51 streams in nine Midwestern States,2002"><title>Concentrations of herbicides in streams in the United States — usgs.herbicides • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Concentrations of herbicides in streams in the United States — usgs.herbicides"><meta property="og:description" content="Concentrations of selected herbicides and degradation products
+  collected from 51 streams in nine Midwestern States,2002"><meta property="og:description" content="Concentrations of selected herbicides and degradation products
   determined by laboratory method analysis code GCS for water samples
-  collected from 51 streams in nine Midwestern States,2002"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+  collected from 51 streams in nine Midwestern States,2002"><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Concentrations of herbicides in streams in the United States</h1>
-      
+
       <div class="d-none name"><code>usgs.herbicides.Rd</code></div>
     </div>
 
@@ -128,12 +114,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>flufenacet</code></dt>
 <dd><p>concentration as character</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Concentrations of selected herbicides and degradation products determined by laboratory method analysis code GCS for water samples collected from 51 streams in nine Midwestern States, 2002.</p>
 <p>All concentrations are micrograms/liter, "&lt;" means "less than". The data are in character format to allow for "&lt;".</p>
 <p>The original report contains data for more herbicides. This data is for illustrative purposes.</p>
@@ -154,7 +140,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">usgs.herbicides</span><span class="op">)</span></span></span>
@@ -193,10 +179,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="kw">for</span><span class="op">(</span><span class="va">vv</span> <span class="kw">in</span> <span class="va">vnames</span><span class="op">)</span> <span class="fu">plotfun</span><span class="op">(</span><span class="va">vv</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/graphics/par.html" class="external-link">par</a></span><span class="op">(</span><span class="va">op</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
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@@ -205,14 +191,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/vaneeuwijk.drymatter.html b/reference/vaneeuwijk.drymatter.html
index 8bf03a17..4cb356a4 100644
--- a/reference/vaneeuwijk.drymatter.html
+++ b/reference/vaneeuwijk.drymatter.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of maize, dry matter content</h1>
-      
+
       <div class="d-none name"><code>vaneeuwijk.drymatter.Rd</code></div>
     </div>
 
@@ -77,19 +63,19 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>dry matter percent</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
 
-<p>Percent dry matter is given.</p>  
+
+<p>Percent dry matter is given.</p>
 <p>Site codes are soil type classifications:
   SS=Southern Sand, CS=Central Sand, NS=Northern Sand, RC=River Clay.</p>
 <p>These data are a balanced subset of the data analyzed in
   van Eeuwijk, Keizer, and Bakker (1995b) and
-  Kroonenberg, Basford, and Ebskamp (1995).</p>  
-  
+  Kroonenberg, Basford, and Ebskamp (1995).</p>
+
 <p>Used with permission of Fred van Eeuwijk.</p>
     </div>
     <div class="section level2">
@@ -101,14 +87,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
-  
+
+
 <p>Kroonenberg, P.M., Basford, K.E. &amp; Ebskamp, A.G.M. (1995).
   Three-way cluster and component analysis of maize variety trials.
   Euphytica, 84(1):31-42.
   https://doi.org/10.1007/BF01677554</p>
 <p>van Eeuwijk, F.A., Keizer, L.C.P. &amp; Bakker, J.J. Van Eeuwijk. (1995b).
-  Linear and bilinear models for the analysis of multi-environment trials: 
+  Linear and bilinear models for the analysis of multi-environment trials:
   II. An application to data from the Dutch Maize Variety Trials
   Euphytica, 84(1):9-22.
   https://doi.org/10.1007/BF01677552</p>
@@ -118,7 +104,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vaneeuwijk.drymatter</span><span class="op">)</span></span></span>
@@ -154,10 +140,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">##         site (Intercept) &lt;NA&gt; 6.504   2.55  </span></span></span>
 <span class="r-in"><span>  <span class="co">##     Residual        &lt;NA&gt; &lt;NA&gt; 0.8885  0.9426</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -166,14 +152,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
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diff --git a/reference/vaneeuwijk.fusarium.html b/reference/vaneeuwijk.fusarium.html
index f39dfa9d..c56d7954 100644
--- a/reference/vaneeuwijk.fusarium.html
+++ b/reference/vaneeuwijk.fusarium.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Infection of wheat varieties by Fusarium strains from 1990 to 1993</h1>
-      
+
       <div class="d-none name"><code>vaneeuwijk.fusarium.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -88,8 +74,8 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>Three-way interactions for varieties 21 and 23 were the only ones in
   1992 suffering from strain infections.  This was due to incorrect
   storage of the innoculum (strain) which rendered it incapable of
-  infecting most other varieties.</p>  
-<p>The data is a subset of the data analyzed by VanEeuwijk et al. 1995.</p>  
+  infecting most other varieties.</p>
+<p>The data is a subset of the data analyzed by VanEeuwijk et al. 1995.</p>
 <p>Used with permission of Fred van Eeuwijk.</p>
     </div>
     <div class="section level2">
@@ -108,13 +94,13 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
   by inoculation with European strains of Fusarium culmorum,
   F. graminearum and F. nivale using a multiplicative model for
   interaction.
-  Theor Appl Genet. 90(2), 221-8. 
+  Theor Appl Genet. 90(2), 221-8.
   https://doi.org/10.1007/BF00222205</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vaneeuwijk.fusarium</span><span class="op">)</span></span></span>
@@ -143,10 +129,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## strain:year      18 236.95  13.164               </span></span></span>
 <span class="r-in"><span>  <span class="co">## gen:strain:year 342  93.15   0.272</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -155,14 +141,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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-  populations."><title>Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes"><meta property="og:description" content="The number of cysts on 11 potato genotypes for 5 potato cyst nematode
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations.</h1>
-      
+
       <div class="d-none name"><code>vaneeuwijk.nematodes.Rd</code></div>
     </div>
 
@@ -77,7 +63,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>y</code></dt>
 <dd><p>number of cysts</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -106,7 +92,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vaneeuwijk.nematodes</span><span class="op">)</span></span></span>
@@ -175,10 +161,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">A2</span>,<span class="va">B2</span>, expand<span class="op">=</span><span class="fl">2.5</span>,xlim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">2</span>,<span class="fl">2</span><span class="op">)</span>,ylim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">2</span>,<span class="fl">2</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>         main<span class="op">=</span><span class="st">"vaneeuwijk.nematodes - GAMMI biplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -187,14 +173,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
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   </body></html>
 
diff --git a/reference/vargas.txe.html b/reference/vargas.txe.html
index 8abffa26..02f9f32d 100644
--- a/reference/vargas.txe.html
+++ b/reference/vargas.txe.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Treatment x environment interaction in agronomy trials"><title>Treatment x environment interaction in agronomy trials — vargas.txe • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Treatment x environment interaction in agronomy trials — vargas.txe"><meta property="og:description" content="Treatment x environment interaction in agronomy trials"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Treatment x environment interaction in agronomy trials — vargas.txe • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Treatment x environment interaction in agronomy trials — vargas.txe"><meta name="description" content="Treatment x environment interaction in agronomy trials"><meta property="og:description" content="Treatment x environment interaction in agronomy trials"><meta property="og:image" content="/logo.png"></head><body>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Treatment x environment interaction in agronomy trials</h1>
-      
+
       <div class="d-none name"><code>vargas.txe.Rd</code></div>
     </div>
 
@@ -66,7 +52,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p>The 'vargas.txe.covs' data has 10 years of measurements on 28
   environmental covariates:</p><dl><dt><code>year</code></dt>
@@ -86,7 +72,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
 
     <dt><code>MTA</code></dt>
 <dd><p>mean maximum temperature in April</p></dd>
-    
+
     <dt><code>mTD</code></dt>
 <dd><p>mean minimum temperature in December</p></dd>
 
@@ -153,7 +139,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>EVA</code></dt>
 <dd><p>total monthly evaporation in Apr</p></dd>
 
-  
+
 </dl><p>The 'vargas.txe.yield' dataframe contains 240 observations on
   three variables</p><dl><dt><code>year</code></dt>
 <dd><p>Year</p></dd>
@@ -164,12 +150,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>Grain yield, kg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>The treatment names indicate:</p><table class="table table"><tr><td>T</td><td>deep knife</td></tr><tr><td>t</td><td>no deep knife</td></tr><tr><td>S</td><td>sesbania</td></tr><tr><td>s</td><td>soybean</td></tr><tr><td>M</td><td>chicken manure</td></tr><tr><td>m</td><td>no chicken manure</td></tr><tr><td>0</td><td>no nitrogen</td></tr><tr><td>n</td><td>100 kg/ha nitrogen</td></tr><tr><td>N</td><td>200 kg/ha nitrogen</td></tr></table><p>Used with permission of Jose Crossa.</p>
     </div>
     <div class="section level2">
@@ -183,7 +169,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vargas.txe.covs</span><span class="op">)</span></span></span>
@@ -212,10 +198,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># Vargas Fig 2, flipped vertical/horizontal</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">m1</span>, which<span class="op">=</span><span class="st">"x"</span>, var.axes<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -224,14 +210,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/vargas.wheat1.html b/reference/vargas.wheat1.html
index 2e593bd8..6f6cf702 100644
--- a/reference/vargas.wheat1.html
+++ b/reference/vargas.wheat1.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Yield of Durum wheat, 7 genotypes, 6 years, with 16 genotypic variates
-  and 16 environment variates."><title>Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1"><meta property="og:description" content="Yield of Durum wheat, 7 genotypes, 6 years, with 16 genotypic variates
-  and 16 environment variates."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1"><meta name="description" content="Yield of Durum wheat, 7 genotypes, 6 years, with 16 genotypic variates
+  and 16 environment variates."><meta property="og:description" content="Yield of Durum wheat, 7 genotypes, 6 years, with 16 genotypic variates
+  and 16 environment variates."><meta property="og:image" content="/logo.png"></head><body>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Wheat yields in 7 years with genetic and environment covariates</h1>
-      
+
       <div class="d-none name"><code>vargas.wheat1.Rd</code></div>
     </div>
 
@@ -69,7 +55,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p>The <code>vargas.wheat1.covs</code> dataframe has 6 observations on the following 17 variables.</p><dl><dt><code>year</code></dt>
 <dd><p>year, 1990-1995</p></dd>
@@ -122,7 +108,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>SHM</code></dt>
 <dd><p>Sun hours in March</p></dd>
 
-  
+
 </dl><p>The <code>vargas.wheat1.traits</code> dataframe has 126 observations on the following 19 variables.</p><dl><dt><code>year</code></dt>
 <dd><p>year, 1990-1995</p></dd>
 
@@ -181,11 +167,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
 <dd><p>kernel growth rate, mg/kernel/day</p></dd>
 
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Conducted in Ciudad Obregon, Mexico.</p>
     </div>
@@ -202,7 +188,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vargas.wheat1.covs</span><span class="op">)</span></span></span>
@@ -239,10 +225,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu">plsr</span><span class="op">(</span><span class="va">Y2</span><span class="op">~</span><span class="va">X2</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/loadings.html" class="external-link">loadings</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span><span class="op">[</span>,<span class="fl">1</span>,drop<span class="op">=</span><span class="cn">FALSE</span><span class="op">]</span> <span class="co"># X loadings in Table 2 of Vargas</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -251,14 +237,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/vargas.wheat2.html b/reference/vargas.wheat2.html
index 20ca2063..6273e464 100644
--- a/reference/vargas.wheat2.html
+++ b/reference/vargas.wheat2.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="The yield of 8 wheat genotypes was measured in 21 low-humidity
-  environments.  Each environment had 13 covariates recorded."><title>Multi-environment trial of wheat with environmental covariates — vargas.wheat2 • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of wheat with environmental covariates — vargas.wheat2"><meta property="og:description" content="The yield of 8 wheat genotypes was measured in 21 low-humidity
-  environments.  Each environment had 13 covariates recorded."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  environments.  Each environment had 13 covariates recorded."><meta property="og:description" content="The yield of 8 wheat genotypes was measured in 21 low-humidity
+  environments.  Each environment had 13 covariates recorded."><meta property="og:image" content="/logo.png"></head><body>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of wheat with environmental covariates</h1>
-      
+
       <div class="d-none name"><code>vargas.wheat2.Rd</code></div>
     </div>
 
@@ -69,7 +55,7 @@ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage">
 
     <div class="section level2">
     <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
-    
+
 
 <p>The 'vargas.wheat2.covs' data frame has 21 observations on the following 14 variables.</p><dl><dt><code>env</code></dt>
 <dd><p>environment</p></dd>
@@ -113,7 +99,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>SHG</code></dt>
 <dd><p>sun hours per day during grainfill stage</p></dd>
 
-  
+
 </dl><p>The 'vargas.wheat2.yield' data frame has 168 observations on the following 3 variables.</p><dl><dt><code>env</code></dt>
 <dd><p>environment</p></dd>
 
@@ -123,11 +109,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield (kg/ha)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Grain yields (kg/ha) for 8 wheat genotypes at 21 low-humidity
   environments grown during 1990-1994. The data is environment-centered
@@ -138,14 +124,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Mateo Vargas and Jose Crossa and Ken Sayre and Matthew Renolds and
   Martha E Ramirez and Mike Talbot, 1998.
   Interpreting Genotype x Environment Interaction in Wheat by
-  Partial Least Squares Regression, <em>Crop Science</em>, 38, 679--689.
-  https://doi.org/10.2135/cropsci1998.0011183X003800030010x</p>  
+  Partial Least Squares Regression, <em>Crop Science</em>, 38, 679–689.
+  https://doi.org/10.2135/cropsci1998.0011183X003800030010x</p>
 <p>Data provided by Jose Crossa.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">pls</span>,<span class="va">reshape2</span><span class="op">)</span></span></span>
@@ -182,10 +168,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># biplot(m2, cex=.5, which="scores", var.axes=TRUE)</span></span></span>
 <span class="r-in"><span>  <span class="co"># biplot(m2, cex=.5, which="loadings", var.axes=TRUE)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -194,14 +180,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/verbyla.lupin.html b/reference/verbyla.lupin.html
index 8b262154..e4c99cd9 100644
--- a/reference/verbyla.lupin.html
+++ b/reference/verbyla.lupin.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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-  2 years and multiple locations."><title>Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin"><meta property="og:description" content="Yield of 9 varieties of lupin at different planting densities across
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin"><meta name="description" content="Yield of 9 varieties of lupin at different planting densities across
+  2 years and multiple locations."><meta property="og:description" content="Yield of 9 varieties of lupin at different planting densities across
+  2 years and multiple locations."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of lupin, multiple varieties and densities</h1>
-      
+
       <div class="d-none name"><code>verbyla.lupin.Rd</code></div>
     </div>
 
@@ -103,24 +89,24 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>loc</code></dt>
 <dd><p>location</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Nine varieties of lupin were tested for yield response to plant density
   at 11 sites.  The target density in 1991 was 10, 20, ..., 60 plants per
   m^2, and in 1992 was 20, 30, ..., 70 plants per m^2.</p>
-<p>Plot dimensions are not given.</p>  
-<p>The variety Myallie was grown only in 1992.</p>  
+<p>Plot dimensions are not given.</p>
+<p>The variety Myallie was grown only in 1992.</p>
 <p>Each site had 2 reps in 1991 and 3 reps in
   1992.  Each rep was laid out as a factorial RCB design; one randomization was
   used for all sites in 1991 and one (different) randomization was used
   for all sites in 1992.  (This was confirmed with the principal
-  investigator.)</p>  
+  investigator.)</p>
 <p>In 1991 at the Mt. Barker location, the data for columns
-  5 and 6 was discarded due to problems with weeds.</p>  
-<p>Variety 'Myallie' was called '84L:439' in Verbyla 1997.</p>  
-<p>The year of release for the varieties is</p>  
+  5 and 6 was discarded due to problems with weeds.</p>
+<p>Variety 'Myallie' was called '84L:439' in Verbyla 1997.</p>
+<p>The year of release for the varieties is</p>
 <p></p><table class="table table"><tr><td>Unicrop</td><td>1973</td></tr><tr><td>Illyarrie</td><td>1979</td></tr><tr><td>Yandee</td><td>1980</td></tr><tr><td>Danja</td><td>1986</td></tr><tr><td>Gungurru</td><td>1988</td></tr><tr><td>Yorrel</td><td>1989</td></tr><tr><td>Warrah</td><td>1989</td></tr><tr><td>Merrit</td><td>1991</td></tr><tr><td>Myallie</td><td>1995</td></tr></table><p>Data retrieved Oct 2010 from https://www.blackwellpublishers.co.uk/rss.
   (No longer available).</p>
 <p>Used with permission of Blackwell Publishing.</p>
@@ -130,8 +116,8 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Arunas P. Verbyla and Brian R. Cullis and Michael G. Kenward
   and Sue J. Welham, (1999).
   The analysis of designed experiments and longitudinal data by using
-  smoothing splines. 
-  Appl. Statist., 48, 269--311.
+  smoothing splines.
+  Appl. Statist., 48, 269–311.
   https://doi.org/10.1111/1467-9876.00154</p>
 <p>Arunas P. Verbyla and Brian R. Cullis and Michael G. Kenward
   and Sue J. Welham, (1997).
@@ -144,7 +130,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">verbyla.lupin</span><span class="op">)</span></span></span>
@@ -152,7 +138,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># The same RCB randomization was used at all sites in each year</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen</span><span class="op">~</span><span class="va">col</span><span class="op">+</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">gen</span><span class="op">~</span><span class="va">col</span><span class="op">+</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">rep</span>, num<span class="op">=</span><span class="va">rate</span>,</span></span>
 <span class="r-in"><span>          <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"verbyla.lupin - experiment design"</span><span class="op">)</span></span></span>
@@ -260,10 +246,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>         xlim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span><span class="op">:</span><span class="fl">19</span><span class="op">)</span>, zlim<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">0</span>,<span class="fl">1.5</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -272,14 +258,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
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-  
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diff --git a/reference/vishnaadevi.rice.uniformity.html b/reference/vishnaadevi.rice.uniformity.html
index 35b5b3b7..53ca6631 100644
--- a/reference/vishnaadevi.rice.uniformity.html
+++ b/reference/vishnaadevi.rice.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of rice in Madurai, India."><title>Uniformity trial of rice — vishnaadevi.rice.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of rice — vishnaadevi.rice.uniformity"><meta property="og:description" content="Uniformity trial of rice in Madurai, India."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of rice</h1>
-      
+
       <div class="d-none name"><code>vishnaadevi.rice.uniformity.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield per plot, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -86,7 +72,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   If we remove this outlier, the CV is smaller than the value in the
   paper.
   This means that the outlier value is not a simple typo in the
-  publication, but was the actual value in the original data.</p>  
+  publication, but was the actual value in the original data.</p>
 <p>Field width: 12 columns x 1m = 12 m</p>
 <p>Field length: 24 rows x 1m = 24m</p>
     </div>
@@ -104,7 +90,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vishnaadevi.rice.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span><span class="va">vishnaadevi.rice.uniformity</span></span></span>
@@ -113,13 +99,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># sd(dat$yield)/mean(dat$yield) = .0277</span></span></span>
 <span class="r-in"><span>  <span class="co"># If we remove the outlier yield 685, then we calculate .0256</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">24</span><span class="op">/</span><span class="fl">12</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"vishnaadevi.rice.uniformity"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -128,14 +114,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/vold.longterm.html b/reference/vold.longterm.html
index 2bdf657b..e84a975d 100644
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@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Long-term barley yields at different fertilizer levels</h1>
-      
+
       <div class="d-none name"><code>vold.longterm.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams/m^2</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vold.longterm</span><span class="op">)</span></span></span>
@@ -185,10 +171,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## # Income is maximized at about 15</span></span></span>
 <span class="r-in"><span>  <span class="co">## pdat2 &lt;- transform(pdat2, income = predf*2 - 7*nitro)</span></span></span>
 <span class="r-in"><span>  <span class="co">## with(pdat2, xyplot(income~nitro))</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -197,14 +183,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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diff --git a/reference/vsn.lupin3.html b/reference/vsn.lupin3.html
index e6c53afa..11a96eca 100644
--- a/reference/vsn.lupin3.html
+++ b/reference/vsn.lupin3.html
@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
-    <a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a>
-  </div>
-</li>
-<li class="nav-item">
-  <a class="nav-link" href="../news/index.html">Changelog</a>
-</li>
-      </ul><form class="form-inline my-2 my-lg-0" role="search">
-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
-
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-  <a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="github">
-    <span class="fab fa fab fa-github fa-lg"></span>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of lupin, early generation trial</h1>
-      
+
       <div class="d-none name"><code>vsn.lupin3.Rd</code></div>
     </div>
 
@@ -76,7 +62,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -92,7 +78,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">vsn.lupin3</span><span class="op">)</span></span></span>
@@ -108,12 +94,12 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="op">}</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
 <span class="r-in"><span>          <span class="co"># midpoint="midrange",</span></span></span>
 <span class="r-in"><span>          <span class="co"># aspect unknown</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"vsn.lupin3 - yield"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Site 1 &amp; 2 used same randomization</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">check</span><span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">check</span><span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">site</span>,</span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"vsn.lupin3: check plot placement"</span><span class="op">)</span> </span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw">if</span><span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="st">"asreml"</span>, quietly<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span><span class="op">)</span><span class="op">{</span></span></span>
@@ -133,7 +119,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="va">m1</span><span class="op">$</span><span class="va">loglik</span></span></span>
 <span class="r-in"><span>    <span class="co">## [1] -314.2616</span></span></span>
 <span class="r-in"><span>    </span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m1</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="co">##                      effect component std.error z.ratio constr</span></span></span>
 <span class="r-in"><span>    <span class="co">##  at(site, S1):colf!colf.var   0.6228   0.4284       1.5    pos</span></span></span>
 <span class="r-in"><span>    <span class="co">##  at(site, S2):colf!colf.var   0.159    0.1139       1.4    pos</span></span></span>
@@ -203,10 +189,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## [3,] 0.133 0.078 0.122</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -215,14 +201,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/wallace.iowaland.html b/reference/wallace.iowaland.html
index 891b5b2c..cb7b7d12 100644
--- a/reference/wallace.iowaland.html
+++ b/reference/wallace.iowaland.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Iowa farmland values by county in 1925"><title>Iowa farmland values by county in 1925 — wallace.iowaland • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Iowa farmland values by county in 1925 — wallace.iowaland"><meta property="og:description" content="Iowa farmland values by county in 1925"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Iowa farmland values by county in 1925 — wallace.iowaland • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Iowa farmland values by county in 1925 — wallace.iowaland"><meta name="description" content="Iowa farmland values by county in 1925"><meta property="og:description" content="Iowa farmland values by county in 1925"><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Iowa farmland values by county in 1925</h1>
-      
+
       <div class="d-none name"><code>wallace.iowaland.Rd</code></div>
     </div>
 
@@ -95,7 +81,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>stval</code></dt>
 <dd><p>land value (excluding buildings) per acre, 1925 state census</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -183,7 +169,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -192,14 +178,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/walsh.cottonprice.html b/reference/walsh.cottonprice.html
index a3984b44..4c6e0653 100644
--- a/reference/walsh.cottonprice.html
+++ b/reference/walsh.cottonprice.html
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       <img src="../logo.png" class="logo" alt=""><h1>Acres and price of cotton 1910-1943</h1>
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       <div class="d-none name"><code>walsh.cottonprice.Rd</code></div>
     </div>
 
@@ -88,7 +74,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>adjcombined</code></dt>
 <dd><p>adjusted combined price/pound (cents)</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -104,7 +90,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -127,10 +113,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">chga</span><span class="op">~</span><span class="va">chgp</span>, <span class="va">dat</span>, type<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">'p'</span>,<span class="st">'r'</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"walsh.cottonprice"</span>,</span></span>
 <span class="r-in"><span>       xlab<span class="op">=</span><span class="st">"Percent change in previous price"</span>, ylab<span class="op">=</span><span class="st">"Percent change in acres"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -139,14 +125,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
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diff --git a/reference/wassom.brome.uniformity.html b/reference/wassom.brome.uniformity.html
index 9b80f969..34cdf7f4 100644
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+++ b/reference/wassom.brome.uniformity.html
@@ -1,56 +1,42 @@
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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-        <input type="search" class="form-control me-sm-2" aria-label="Toggle navigation" name="search-input" data-search-index="../search.json" id="search-input" placeholder="Search for" autocomplete="off"></form>
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-    <span class="fab fa fab fa-github fa-lg"></span>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trials of bromegrass</h1>
-      
+
       <div class="d-none name"><code>wassom.brome.uniformity.Rd</code></div>
     </div>
 
@@ -77,11 +63,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>forage yield, pounds</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Experiments were conducted at Ames, Iowa.  The response variable is
   forage yield in pounds of green weight.</p>
@@ -96,7 +82,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>Experiment E3 was broadcast seeded, harvested in 1951.  This field contained
   a mixture of alfalfa and brome in about equal proportions.</p>
 <p>Each plot was 3.5 ft x 4 ft, but the orientation of the plot is not
-  clear.</p>  
+  clear.</p>
 <p>Field width: 36 plots</p>
 <p>Field length: 36 plots</p>
     </div>
@@ -112,21 +98,21 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">wassom.brome.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">wassom.brome.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">expt</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, aspect<span class="op">=</span><span class="fl">1</span>, <span class="co"># approximate aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"wassom.brome.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -135,14 +121,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/waynick.soil.html b/reference/waynick.soil.html
index 5b90b759..a73cfab9 100644
--- a/reference/waynick.soil.html
+++ b/reference/waynick.soil.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Soil nitrogen and carbon in two fields"><title>Soil nitrogen and carbon in two fields — waynick.soil • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Soil nitrogen and carbon in two fields — waynick.soil"><meta property="og:description" content="Soil nitrogen and carbon in two fields"><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Soil nitrogen and carbon in two fields — waynick.soil • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Soil nitrogen and carbon in two fields — waynick.soil"><meta name="description" content="Soil nitrogen and carbon in two fields"><meta property="og:description" content="Soil nitrogen and carbon in two fields"><meta property="og:image" content="/logo.png"></head><body>
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
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+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Soil nitrogen and carbon in two fields</h1>
-      
+
       <div class="d-none name"><code>waynick.soil.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>carbon</code></dt>
 <dd><p>carbon content, percent</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">waynick.soil</span><span class="op">)</span></span></span>
@@ -118,13 +104,13 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       col.regions <span class="op">=</span>  <span class="fu">bpy.colors</span><span class="op">(</span><span class="fl">8</span><span class="op">)</span>, key.space <span class="op">=</span> <span class="st">"right"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Variogram</span></span></span>
-<span class="r-in"><span><span class="va">v1</span> <span class="op">&lt;-</span> <span class="fu">gstat</span><span class="fu">::</span><span class="fu"><a href="https://rdrr.io/pkg/gstat/man/variogram.html" class="external-link">variogram</a></span><span class="op">(</span><span class="va">nitro</span><span class="op">~</span><span class="fl">1</span>, data<span class="op">=</span><span class="va">d1</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="va">v1</span> <span class="op">&lt;-</span> <span class="fu">gstat</span><span class="fu">::</span><span class="fu"><a href="https://r-spatial.github.io/gstat/reference/variogram.html" class="external-link">variogram</a></span><span class="op">(</span><span class="va">nitro</span><span class="op">~</span><span class="fl">1</span>, data<span class="op">=</span><span class="va">d1</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">v1</span>, main<span class="op">=</span><span class="st">"waynick.soil - Davis field - nitrogen"</span><span class="op">)</span> <span class="co"># Maybe hasn't reached sill</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -133,14 +119,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
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-  at 9 sites."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  at 9 sites."><meta property="og:description" content="Percent of leaf area affected by leaf blotch on 10 varieties of barley
+  at 9 sites."><meta property="og:image" content="/logo.png"></head><body>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley, percent of leaves affected by leaf blotch</h1>
-      
+
       <div class="d-none name"><code>wedderburn.barley.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>gen</code></dt>
 <dd><p>Variety factor, 10 levels</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -85,7 +71,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <p>Wedderburn, R W M (1974).
   Quasilikelihood functions, generalized linear models and the
   Gauss-Newton method.
-  <em>Biometrika</em>, 61, 439--47.
+  <em>Biometrika</em>, 61, 439–47.
   https://doi.org/10.2307/2334725</p>
 <p>Wedderburn credits the original data to an unpublished thesis by
   J. F. Jenkyn.</p>
@@ -101,7 +87,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -148,11 +134,11 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Compare data and model</span></span></span>
 <span class="r-in"><span><span class="va">dat</span><span class="op">$</span><span class="va">pwed</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/predict.html" class="external-link">predict</a></span><span class="op">(</span><span class="va">m3</span>, type<span class="op">=</span><span class="st">"response"</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">dotplot</a></span><span class="op">(</span><span class="va">gen</span><span class="op">~</span><span class="va">pwed</span><span class="op">+</span><span class="va">y</span><span class="op">|</span><span class="va">site</span>, <span class="va">dat</span>, main<span class="op">=</span><span class="st">"wedderburn.barley"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -161,14 +147,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
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index 105bf9e6..160fc788 100644
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Soybean balanced incomplete block experiment</h1>
-      
+
       <div class="d-none name"><code>weiss.incblock.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>col</code></dt>
 <dd><p>column</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -94,7 +80,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
   not equal, the correction for blocks adjusted their means to identical
   values. Such accuracy is not, however, claimed to be a constant
   characteristic of the design.</p>
-<p>Field width: 96 feet</p>  
+<p>Field width: 96 feet</p>
 <p>Field length: 252 feet</p>
     </div>
     <div class="section level2">
@@ -108,7 +94,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">weiss.incblock</span><span class="op">)</span></span></span>
@@ -116,7 +102,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="co"># True aspect as shown in Weiss and Cox</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, shorten<span class="op">=</span><span class="st">'none'</span>, cex<span class="op">=</span><span class="fl">.6</span>, out1<span class="op">=</span><span class="va">block</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">252</span><span class="op">/</span><span class="fl">96</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"weiss.incblock"</span><span class="op">)</span></span></span>
@@ -136,10 +122,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">## G05     26.02    0.8312  Estimable</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -148,14 +134,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/weiss.lattice.html b/reference/weiss.lattice.html
index 4fae1a94..5aa7a9d5 100644
--- a/reference/weiss.lattice.html
+++ b/reference/weiss.lattice.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Lattice experiment in soybeans."><title>Lattice experiment in soybeans. — weiss.lattice • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Lattice experiment in soybeans. — weiss.lattice"><meta property="og:description" content="Lattice experiment in soybeans."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Lattice experiment in soybeans. — weiss.lattice • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Lattice experiment in soybeans. — weiss.lattice"><meta name="description" content="Lattice experiment in soybeans."><meta property="og:description" content="Lattice experiment in soybeans."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Lattice experiment in soybeans.</h1>
-      
+
       <div class="d-none name"><code>weiss.lattice.Rd</code></div>
     </div>
 
@@ -80,7 +66,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>row</code></dt>
 <dd><p>row</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -105,14 +91,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">weiss.lattice</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">weiss.lattice</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">rep</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span><span class="op">|</span><span class="va">rep</span>,</span></span>
 <span class="r-in"><span>          text<span class="op">=</span><span class="va">gen</span>, shorten<span class="op">=</span><span class="st">"none"</span>, cex<span class="op">=</span><span class="fl">.8</span>, aspect<span class="op">=</span><span class="fl">3</span><span class="op">/</span><span class="fl">16</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"weiss.lattice (layout uncertain)"</span>, xlab<span class="op">=</span><span class="st">"Soybean yields"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -145,10 +131,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="co">##  G06      23.79     1.461 Estimable</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -157,14 +143,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
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diff --git a/reference/welch.bermudagrass.html b/reference/welch.bermudagrass.html
index 28a433ca..95662f57 100644
--- a/reference/welch.bermudagrass.html
+++ b/reference/welch.bermudagrass.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers."><title>Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass"><meta property="og:description" content="Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers</h1>
-      
+
       <div class="d-none name"><code>welch.bermudagrass.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield of grass, tons/ac</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -82,7 +68,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>4 n nitrogen levels: 0, 100, 200, 400 pounds/acre</p>
 <p>4 p phosphorous levels: 0, 22, 44, 88 pounds/acre</p>
 <p>4 k potassium levels: 0, 42, 84, 168 pounds/acre</p>
-  
+
 <p>There were 3 blocks.
   The harvests were oven-dried.
   Each value is the mean for 3 years and 3 replications.
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">welch.bermudagrass</span><span class="op">)</span></span></span>
@@ -217,10 +203,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/with.html" class="external-link">with</a></span><span class="op">(</span><span class="va">dat</span>, <span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">yield</span>, <span class="va">yield</span><span class="op">-</span><span class="va">yhat</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="op">}</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -229,14 +215,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/wheatley.carrot.html b/reference/wheatley.carrot.html
index c55adf5e..94492755 100644
--- a/reference/wheatley.carrot.html
+++ b/reference/wheatley.carrot.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
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-  Two insecticides with five depths."><title>Insecticide treatments for carrot fly larvae — wheatley.carrot • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Insecticide treatments for carrot fly larvae — wheatley.carrot"><meta property="og:description" content="Insecticide treatments for carrot fly larvae.
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+  Two insecticides with five depths."><meta property="og:description" content="Insecticide treatments for carrot fly larvae.
+  Two insecticides with five depths."><meta property="og:image" content="/logo.png"></head><body>
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       <img src="../logo.png" class="logo" alt=""><h1>Insecticide treatments for carrot fly larvae</h1>
-      
+
       <div class="d-none name"><code>wheatley.carrot.Rd</code></div>
     </div>
 
@@ -86,15 +72,15 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>total</code></dt>
 <dd><p>total number of plants</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>In 1964 an experiment was conducted with microplots to evaluate the
   effectiveness of treatments against carrot fly larvae.
-  The treatment factor is a combination of insecticide and depth.</p>  
+  The treatment factor is a combination of insecticide and depth.</p>
 <p>Hardin &amp; Hilbe used this data to fit a generalized binomial model.</p>
 <p>Famoye (1995) used the same data to fit a generalized binomial regression model.
   Results for Famoye are not shown.</p>
@@ -105,12 +91,12 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   A method of using the proportions of undamaged carrots or parsnips to
   estimate the relative population densities of carrot fly (Psila rosae)
   larvae, and its practical applications.
-  <em>Annals of Applied Biology</em>, 100, 229-244.  Table 2.</p>  
+  <em>Annals of Applied Biology</em>, 100, 229-244.  Table 2.</p>
 <p>https://doi.org/10.1111/j.1744-7348.1982.tb01935.x</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>James William Hardin, Joseph M. Hilbe.
   <em>Generalized Linear Models and Extensions</em>, 2nd ed.</p>
@@ -120,7 +106,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -145,10 +131,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="va">m2</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/stats/glm.html" class="external-link">glm</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/cbind.html" class="external-link">cbind</a></span><span class="op">(</span><span class="va">damaged</span>,<span class="va">total</span><span class="op">-</span><span class="va">damaged</span><span class="op">)</span> <span class="op">~</span> <span class="va">rep</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/stats/zC.html" class="external-link">C</a></span><span class="op">(</span><span class="va">treatment</span>, base<span class="op">=</span><span class="fl">11</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          data<span class="op">=</span><span class="va">dat</span>, family<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/stats/family.html" class="external-link">binomial</a></span><span class="op">(</span><span class="st">"cloglog"</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/summary.html" class="external-link">summary</a></span><span class="op">(</span><span class="va">m2</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -157,14 +143,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/reference/wiebe.wheat.uniformity.html b/reference/wiebe.wheat.uniformity.html
index cd24fe3e..f45007b7 100644
--- a/reference/wiebe.wheat.uniformity.html
+++ b/reference/wiebe.wheat.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of wheat</h1>
-      
+
       <div class="d-none name"><code>wiebe.wheat.uniformity.Rd</code></div>
     </div>
 
@@ -70,11 +56,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield in grams per plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>Yield trial conducted in 1927 near Aberdeen, Idaho.  The crop was
   Federation wheat (C.I. no 4734). Plots were seeded on April 18 with a
@@ -97,7 +83,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
     <p>D.A. Preece, 1981,
   Distributions of final digits in data,
-  <em>The Statistician</em>, 30, 31--60.
+  <em>The Statistician</em>, 30, 31–60.
   https://doi.org/10.2307/2987702</p>
 <p>Wilkinson et al. (1983).
   Nearest Neighbour (NN) Analysis of Field Experiments.
@@ -123,7 +109,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">wiebe.wheat.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">+</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">+</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          aspect<span class="op">=</span><span class="fl">125</span><span class="op">/</span><span class="fl">180</span>, flip<span class="op">=</span><span class="cn">TRUE</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"wiebe.wheat.uniformity: yield"</span><span class="op">)</span> <span class="co"># row 1 is at south</span></span></span>
 <span class="r-plt img"><img src="wiebe.wheat.uniformity-1.png" alt="" width="700" height="433"></span>
@@ -211,7 +197,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -220,14 +206,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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diff --git a/reference/wiedemann.safflower.uniformity.html b/reference/wiedemann.safflower.uniformity.html
index e63a72b7..05a6cca4 100644
--- a/reference/wiedemann.safflower.uniformity.html
+++ b/reference/wiedemann.safflower.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of safflower at Farmington, Utah, 1960."><title>Uniformity trial of safflower — wiedemann.safflower.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of safflower — wiedemann.safflower.uniformity"><meta property="og:description" content="Uniformity trial of safflower at Farmington, Utah, 1960."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of safflower — wiedemann.safflower.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of safflower — wiedemann.safflower.uniformity"><meta name="description" content="Uniformity trial of safflower at Farmington, Utah, 1960."><meta property="og:description" content="Uniformity trial of safflower at Farmington, Utah, 1960."><meta property="og:image" content="/logo.png"></head><body>
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+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
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+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of safflower</h1>
-      
+
       <div class="d-none name"><code>wiedemann.safflower.uniformity.Rd</code></div>
     </div>
 
@@ -74,11 +60,11 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, grams</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
+
 
 <p>This trial was planted at University Field Station, Farmington, Utah,
   in 1960, on a plot of land about one half acre in size.  The soil was
@@ -124,7 +110,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -135,7 +121,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/sd.html" class="external-link">sd</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span><span class="op">/</span><span class="fu"><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean</a></span><span class="op">(</span><span class="va">dat</span><span class="op">$</span><span class="va">yield</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span><span class="op">~</span><span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>          flip<span class="op">=</span><span class="cn">TRUE</span>, tick<span class="op">=</span><span class="cn">TRUE</span>, aspect <span class="op">=</span><span class="fl">99</span><span class="op">/</span><span class="fl">165</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"wiedemann.safflower.uniformity (true shape)"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -146,10 +132,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>              main<span class="op">=</span><span class="st">"wiedemann.safflower.uniformity"</span>,</span></span>
 <span class="r-in"><span>              col<span class="op">=</span><span class="st">"red"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  </span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -158,14 +144,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/williams.barley.uniformity.html b/reference/williams.barley.uniformity.html
index 52b223f2..3c86dc7c 100644
--- a/reference/williams.barley.uniformity.html
+++ b/reference/williams.barley.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of barley at Narrabri, New South Wales, 1984."><title>Uniformity trial of barley — williams.barley.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of barley — williams.barley.uniformity"><meta property="og:description" content="Uniformity trial of barley at Narrabri, New South Wales, 1984."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Uniformity trial of barley — williams.barley.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of barley — williams.barley.uniformity"><meta name="description" content="Uniformity trial of barley at Narrabri, New South Wales, 1984."><meta property="og:description" content="Uniformity trial of barley at Narrabri, New South Wales, 1984."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
-    <nav class="navbar fixed-top navbar-light navbar-expand-lg bg-light" data-bs-theme="light"><div class="container">
-    
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+    <nav class="navbar navbar-expand-lg fixed-top bg-light" data-bs-theme="light" aria-label="Site navigation"><div class="container">
+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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+
     <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
       <span class="navbar-toggler-icon"></span>
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-  <a class="nav-link" href="../reference/index.html">Reference</a>
-</li>
+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
-    <a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a>
-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of barley</h1>
-      
+
       <div class="d-none name"><code>williams.barley.uniformity.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>grain yield kg/ha divided by 10</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -101,14 +87,14 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">williams.barley.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">williams.barley.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span> <span class="fl">75</span><span class="op">/</span><span class="fl">36</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"williams.barley.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -125,10 +111,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="co"># Williams table 1</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, <span class="va">dat</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -137,14 +123,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/williams.cotton.uniformity.html b/reference/williams.cotton.uniformity.html
index c301f64d..e4602c6e 100644
--- a/reference/williams.cotton.uniformity.html
+++ b/reference/williams.cotton.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of cotton</h1>
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       <div class="d-none name"><code>williams.cotton.uniformity.Rd</code></div>
     </div>
 
@@ -70,7 +56,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>lint yield, kg/ha divided by 10</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -90,14 +76,14 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">williams.cotton.uniformity</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">williams.cotton.uniformity</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="fl">144</span><span class="op">/</span><span class="fl">24</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"williams.cotton.uniformity"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -114,10 +100,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="co"># Williams table 1</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/anova.html" class="external-link">anova</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/stats/aov.html" class="external-link">aov</a></span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">row</span><span class="op">)</span> <span class="op">+</span> <span class="fu"><a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a></span><span class="op">(</span><span class="va">col</span><span class="op">)</span>, <span class="va">dat</span><span class="op">)</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -126,14 +112,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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diff --git a/reference/williams.trees.html b/reference/williams.trees.html
index abd3d92b..db9799fa 100644
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@@ -1,56 +1,42 @@
 <!DOCTYPE html>
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand</h1>
-      
+
       <div class="d-none name"><code>williams.trees.Rd</code></div>
     </div>
 
@@ -73,7 +59,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>survival</code></dt>
 <dd><p>Survival percentage</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -90,7 +76,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
   Statistical analysis of tree species trial and seedlot:site
   interaction in Thailand.  Chapter 14 of <em>Trees for the
     Tropics: Growing Australian Multipurpose Trees and Shrubs in
-    Developing Countries</em>. Pages 145--152.
+    Developing Countries</em>. Pages 145–152.
   https://aciar.gov.au/publication/MN010</p>
     </div>
     <div class="section level2">
@@ -102,7 +88,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">williams.trees</span><span class="op">)</span></span></span>
@@ -111,10 +97,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">lattice</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/pkg/lattice/man/xyplot.html" class="external-link">xyplot</a></span><span class="op">(</span><span class="va">survival</span><span class="op">~</span><span class="va">height</span><span class="op">|</span><span class="va">env</span>,<span class="va">dat</span>, main<span class="op">=</span><span class="st">"williams.trees"</span>, xlab<span class="op">=</span><span class="st">"Height"</span>,</span></span>
 <span class="r-in"><span>ylab<span class="op">=</span><span class="st">"Percent surviving"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -123,14 +109,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
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   </body></html>
 
diff --git a/reference/woodman.pig.html b/reference/woodman.pig.html
index b69deb74..f29da05b 100644
--- a/reference/woodman.pig.html
+++ b/reference/woodman.pig.html
@@ -1,58 +1,44 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Weight gain in pigs for different treatments, with initial weight and
-  feed eaten as covariates."><title>Weight gain in pigs for different treatments — woodman.pig • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight gain in pigs for different treatments — woodman.pig"><meta property="og:description" content="Weight gain in pigs for different treatments, with initial weight and
-  feed eaten as covariates."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Weight gain in pigs for different treatments — woodman.pig • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Weight gain in pigs for different treatments — woodman.pig"><meta name="description" content="Weight gain in pigs for different treatments, with initial weight and
+  feed eaten as covariates."><meta property="og:description" content="Weight gain in pigs for different treatments, with initial weight and
+  feed eaten as covariates."><meta property="og:image" content="/logo.png"></head><body>
     <a href="#main" class="visually-hidden-focusable">Skip to contents</a>
-    
 
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+
     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
     <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.23</small>
 
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-      <ul class="navbar-nav me-auto"><li class="active nav-item">
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+      <ul class="navbar-nav me-auto"><li class="active nav-item"><a class="nav-link" href="../reference/index.html">Reference</a></li>
 <li class="nav-item dropdown">
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-    <a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a>
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-    <a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
-    
+
   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Weight gain in pigs for different treatments</h1>
-      
+
       <div class="d-none name"><code>woodman.pig.Rd</code></div>
     </div>
 
@@ -98,12 +84,12 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>h</code></dt>
 <dd><p>half rate of change in growth</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
-    
-  
+
+
 <p>Six pigs in each of 5 pens were fed individually. From each litter
   there were 3 males and 3 females chosen for a pen. Three different
   diet treatments were used.</p>
@@ -118,7 +104,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>Woodman, Evans, Callow &amp; Wishart (1936).
   The nutrition of the bacon pig. I. The influence of high levels of protein intake on growth, conformation and quality in the bacon pig.
-  The Journal of Agricultural Science, 26, 546 - 619. 
+  The Journal of Agricultural Science, 26, 546 - 619.
   Table V, Page 557.
   https://doi.org/10.1017/S002185960002308X</p>
 <p>Wishart, J. (1938).
@@ -128,18 +114,18 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    <p>Wishart (1950) Table 2, p 17.</p>  
+    <p>Wishart (1950) Table 2, p 17.</p>
 <p>Bernard Ostle (1963). Statistics in Research, 2nd ed. Page 455.
-  https://archive.org/details/secondeditionsta001000mbp</p>  
+  https://archive.org/details/secondeditionsta001000mbp</p>
 <p>Henry Scheffe (1999).
-  The Analysis of Variance.  Page 217.</p>  
+  The Analysis of Variance.  Page 217.</p>
 <p>Peter H Westfall, Randall Tobias, Russell D Wolfinger (2011).
   Multiple Comparisons and Multiple Tests using SAS. Sec 8.3.</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">woodman.pig</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">woodman.pig</span></span></span>
@@ -165,10 +151,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">#  A - B      0.4283 0.288 19 1.490   0.3179 </span></span></span>
 <span class="r-in"><span>  <span class="co">#  A - C      0.5200 0.284 19 1.834   0.1857 </span></span></span>
 <span class="r-in"><span>  <span class="co">#  B - C      0.0918 0.288 19 0.319   0.9456 </span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -177,14 +163,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
     </footer></div>
 
-  
 
-  
+
+
 
   </body></html>
 
diff --git a/reference/wyatt.multi.uniformity.html b/reference/wyatt.multi.uniformity.html
index fac27dd7..5235a886 100644
--- a/reference/wyatt.multi.uniformity.html
+++ b/reference/wyatt.multi.uniformity.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Uniformity trial of oats and wheat on the same ground."><title>Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity"><meta property="og:description" content="Uniformity trial of oats and wheat on the same ground."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Uniformity trial of oats and wheat on the same ground.</h1>
-      
+
       <div class="d-none name"><code>wyatt.multi.uniformity.Rd</code></div>
     </div>
 
@@ -80,18 +66,18 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>crop</code></dt>
 <dd><p>crop</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
     <p>Experiments conducted at the Soils Experimental field at the
-  University of Alberta, Canada.</p>  
-<p>Oats were grown in 1925, with average yield 88 bu/ac.</p>  
+  University of Alberta, Canada.</p>
+<p>Oats were grown in 1925, with average yield 88 bu/ac.</p>
 <p>Wheat was grown in 1926, with average yield 32.2 bu/ac.</p>
 <p>The data reported are relative yields within each year.</p>
 <p>The plot size in rows 1 and 2 (Series A and B in the original paper) is 1/10th acre.
   The plot size in row 3 is 1/11 acre.</p>
-<p>Field length: 3 plots (140 ft, 140 ft, 128 ft) + 2 roads * 16 feet = 440 feet.</p>  
+<p>Field length: 3 plots (140 ft, 140 ft, 128 ft) + 2 roads * 16 feet = 440 feet.</p>
 <p>Field width: 43 plots * 37 ft = 1591 feet.</p>
     </div>
     <div class="section level2">
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">wyatt.multi.uniformity</span><span class="op">)</span></span></span>
@@ -132,17 +118,17 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       type<span class="op">=</span><span class="st">'l'</span>, layout<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">3</span><span class="op">)</span>, auto.key<span class="op">=</span><span class="cn">TRUE</span> <span class="op">)</span>                </span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">crop</span><span class="op">==</span><span class="st">"oats"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">crop</span><span class="op">==</span><span class="st">"oats"</span>,</span></span>
 <span class="r-in"><span>        tick<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="op">(</span><span class="fl">440</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">1591</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"wyatt.multi.uniformity - 1925 oats"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">crop</span><span class="op">==</span><span class="st">"wheat"</span>,</span></span>
+<span class="r-in"><span><span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">yield</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, subset<span class="op">=</span><span class="va">crop</span><span class="op">==</span><span class="st">"wheat"</span>,</span></span>
 <span class="r-in"><span>        aspect<span class="op">=</span><span class="op">(</span><span class="fl">440</span><span class="op">)</span><span class="op">/</span><span class="op">(</span><span class="fl">1591</span><span class="op">)</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>        main<span class="op">=</span><span class="st">"wyatt.multi.uniformity - 1926 wheat"</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -151,14 +137,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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+
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   </body></html>
 
diff --git a/reference/yan.winterwheat.html b/reference/yan.winterwheat.html
index d4c8c6e8..d07163f3 100644
--- a/reference/yan.winterwheat.html
+++ b/reference/yan.winterwheat.html
@@ -1,58 +1,44 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of winter wheat in Ontario</h1>
-      
+
       <div class="d-none name"><code>yan.winterwheat.Rd</code></div>
     </div>
 
@@ -78,7 +64,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield in metric tons per hectare</p></dd>
 
-  
+
 </dl><p>Used with permission of Weikai Yan.</p>
     </div>
     <div class="section level2">
@@ -93,17 +79,17 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
-    
+
 
 <p>Weikai Yan and Manjit S. Kang and Baoluo Ma and Sheila Woods, 2007,
   GGE Biplot vs. AMMI Analysis of Genotype-by-Environment Data,
-  Crop Science, 2007, 47, 641--653.
+  Crop Science, 2007, 47, 641–653.
   https://doi.org/10.2135/cropsci2006.06.0374</p>
     </div>
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
@@ -115,10 +101,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/stats/biplot.html" class="external-link">biplot</a></span><span class="op">(</span><span class="va">m1</span>, flip<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">1</span><span class="op">)</span>, hull<span class="op">=</span><span class="cn">TRUE</span>,</span></span>
 <span class="r-in"><span>       main<span class="op">=</span><span class="st">"yan.winterwheat - GGE biplot"</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -127,14 +113,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
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+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
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   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta.</h1>
-      
+
       <div class="d-none name"><code>yang.barley.Rd</code></div>
     </div>
 
@@ -74,7 +60,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>yield</code></dt>
 <dd><p>yield, Mg/ha</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -100,7 +86,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">yang.barley</span><span class="op">)</span></span></span>
@@ -124,10 +110,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co">## b1 &lt;- bbplot(d1) # create data structures for the biplot</span></span></span>
 <span class="r-in"><span>  <span class="co">## plot(b1) # create the confidence regions on the biplot</span></span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -136,14 +122,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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index 67627515..ba8bf9e3 100644
--- a/reference/yates.missing.html
+++ b/reference/yates.missing.html
@@ -1,56 +1,42 @@
 <!DOCTYPE html>
-<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="Factorial experiment of potato, 3x3 with missing values."><title>Factorial experiment of potato, 3x3 with missing values — yates.missing • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Factorial experiment of potato, 3x3 with missing values — yates.missing"><meta property="og:description" content="Factorial experiment of potato, 3x3 with missing values."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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-<![endif]--></head><body>
+<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><title>Factorial experiment of potato, 3x3 with missing values — yates.missing • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><link href="../deps/font-awesome-6.4.2/css/all.min.css" rel="stylesheet"><link href="../deps/font-awesome-6.4.2/css/v4-shims.min.css" rel="stylesheet"><script src="../deps/headroom-0.11.0/headroom.min.js"></script><script src="../deps/headroom-0.11.0/jQuery.headroom.min.js"></script><script src="../deps/bootstrap-toc-1.0.1/bootstrap-toc.min.js"></script><script src="../deps/clipboard.js-2.0.11/clipboard.min.js"></script><script src="../deps/search-1.0.0/autocomplete.jquery.min.js"></script><script src="../deps/search-1.0.0/fuse.min.js"></script><script src="../deps/search-1.0.0/mark.min.js"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Factorial experiment of potato, 3x3 with missing values — yates.missing"><meta name="description" content="Factorial experiment of potato, 3x3 with missing values."><meta property="og:description" content="Factorial experiment of potato, 3x3 with missing values."><meta property="og:image" content="/logo.png"></head><body>
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+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
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 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Factorial experiment of potato, 3x3 with missing values</h1>
-      
+
       <div class="d-none name"><code>yates.missing.Rd</code></div>
     </div>
 
@@ -79,8 +65,8 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>k</code></dt>
 <dd><p>potassium treatment, 2 levels</p></dd>
 
-   
-  
+
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -90,7 +76,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
 <p>2 nitrogen levels</p>
 <p>2 phosphorous levels</p>
 <p>2 potassium levels</p>
-  
+
 <p>Yates (1933) presents an iterative algorithm to estimate missing
   values in a matrix, using this data as an example.</p>
     </div>
@@ -98,7 +84,7 @@ <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
     <p>F. Yates (1933).
   The analysis of replicated experiments when the field results are incomplete.
-  Emp. J. Exp. Agric., 1, 129--142.</p>
+  Emp. J. Exp. Agric., 1, 129–142.</p>
     </div>
     <div class="section level2">
     <h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
@@ -108,7 +94,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">yates.missing</span><span class="op">)</span></span></span>
@@ -150,10 +136,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>  <span class="co"># mat1 from lm()</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/sum.html" class="external-link">sum</a></span><span class="op">(</span><span class="op">(</span><span class="va">mat0</span><span class="op">-</span><span class="va">mat1</span><span class="op">)</span><span class="op">^</span><span class="fl">2</span>, na.rm<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/base/sum.html" class="external-link">sum</a></span><span class="op">(</span><span class="op">(</span><span class="va">mat0</span><span class="op">-</span><span class="va">mat2</span><span class="op">)</span><span class="op">^</span><span class="fl">2</span>, na.rm<span class="op">=</span><span class="cn">TRUE</span><span class="op">)</span> <span class="co"># Smaller SS =&gt; better fit</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -162,14 +148,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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+
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diff --git a/reference/yates.oats.html b/reference/yates.oats.html
index 9977fedc..8a6c766b 100644
--- a/reference/yates.oats.html
+++ b/reference/yates.oats.html
@@ -1,5 +1,5 @@
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 The yield of oats from a split-plot field trial conducted at
   Rothamsted in 1931.
@@ -15,7 +15,7 @@
   weight to hundredweight/acre needs a conversion factor of 80/112.
 The 'yield' values are the values as they appeared in the paper by
   Yates, who used 1/4-pounds as the units (i.e. he multiplied the
-  original weight by 4) for simpler calculations."><title>Split-plot experiment of oats — yates.oats • agridat</title><!-- favicons --><link rel="icon" type="image/png" sizes="16x16" href="../favicon-16x16.png"><link rel="icon" type="image/png" sizes="32x32" href="../favicon-32x32.png"><link rel="apple-touch-icon" type="image/png" sizes="180x180" href="../apple-touch-icon.png"><link rel="apple-touch-icon" type="image/png" sizes="120x120" href="../apple-touch-icon-120x120.png"><link rel="apple-touch-icon" type="image/png" sizes="76x76" href="../apple-touch-icon-76x76.png"><link rel="apple-touch-icon" type="image/png" sizes="60x60" href="../apple-touch-icon-60x60.png"><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.11/clipboard.min.js" integrity="sha512-7O5pXpc0oCRrxk8RUfDYFgn0nO1t+jLuIOQdOMRp4APB7uZ4vSjspzp5y6YDtDs4VzUSTbWzBFZ/LKJhnyFOKw==" crossorigin="anonymous" referrerpolicy="no-referrer"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split-plot experiment of oats — yates.oats"><meta property="og:description" content="
+  original weight by 4) for simpler calculations."><meta property="og:description" content="
 
 The yield of oats from a split-plot field trial conducted at
   Rothamsted in 1931.
@@ -31,63 +31,49 @@
   weight to hundredweight/acre needs a conversion factor of 80/112.
 The 'yield' values are the values as they appeared in the paper by
   Yates, who used 1/4-pounds as the units (i.e. he multiplied the
-  original weight by 4) for simpler calculations."><meta property="og:image" content="/logo.png"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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+  original weight by 4) for simpler calculations."><meta property="og:image" content="/logo.png"></head><body>
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     <a class="navbar-brand me-2" href="../index.html">agridat</a>
 
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+  <button class="nav-link dropdown-toggle" type="button" id="dropdown-articles" data-bs-toggle="dropdown" aria-expanded="false" aria-haspopup="true">Articles</button>
+  <ul class="dropdown-menu" aria-labelledby="dropdown-articles"><li><a class="dropdown-item" href="../articles/agridat_data.html">Additional sources of agricultural data</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_graphical_gems.html">Graphical Gems in the agridat Package</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_intro.html">Introduction to agridat</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_mixed_model_example.html">Example generalized linear mixed model analysis with different packages</a></li>
+    <li><a class="dropdown-item" href="../articles/agridat_uniformity_data.html">Notes on uniformity data</a></li>
+  </ul></li>
+<li class="nav-item"><a class="nav-link" href="../news/index.html">Changelog</a></li>
+      </ul><ul class="navbar-nav"><li class="nav-item"><form class="form-inline" role="search">
+ <input class="form-control" type="search" name="search-input" id="search-input" autocomplete="off" aria-label="Search site" placeholder="Search for" data-search-index="../search.json"></form></li>
+<li class="nav-item"><a class="external-link nav-link" href="https://github.com/kwstat/agridat/" aria-label="GitHub"><span class="fa fab fa-github fa-lg"></span></a></li>
       </ul></div>
 
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   </div>
 </nav><div class="container template-reference-topic">
 <div class="row">
   <main id="main" class="col-md-9"><div class="page-header">
       <img src="../logo.png" class="logo" alt=""><h1>Split-plot experiment of oats</h1>
-      
+
       <div class="d-none name"><code>yates.oats.Rd</code></div>
     </div>
 
     <div class="ref-description section level2">
-    
+
 
 <p>The yield of oats from a split-plot field trial conducted at
   Rothamsted in 1931.</p>
@@ -133,7 +119,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>straw</code></dt>
 <dd><p>straw weight in pounds per sub-plot</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
@@ -149,7 +135,7 @@ <h2 id="references">References<a class="anchor" aria-label="anchor" href="#refer
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">yates.oats</span><span class="op">)</span></span></span>
@@ -163,7 +149,7 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">desplot</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="co"># Experiment design &amp; yield heatmap</span></span></span>
-<span class="r-in"><span>  <span class="fu"><a href="https://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">block</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, col.regions<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"black"</span>,<span class="st">"yellow"</span><span class="op">)</span>,</span></span>
+<span class="r-in"><span>  <span class="fu"><a href="http://kwstat.github.io/desplot/reference/desplot.html" class="external-link">desplot</a></span><span class="op">(</span><span class="va">dat</span>, <span class="va">block</span> <span class="op">~</span> <span class="va">col</span><span class="op">*</span><span class="va">row</span>, col.regions<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"black"</span>,<span class="st">"yellow"</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>          out1<span class="op">=</span><span class="va">block</span>, num<span class="op">=</span><span class="va">nitro</span>, col<span class="op">=</span><span class="va">gen</span>,</span></span>
 <span class="r-in"><span>          cex<span class="op">=</span><span class="fl">1</span>, aspect<span class="op">=</span><span class="fl">511</span><span class="op">/</span><span class="fl">176</span>, <span class="co"># true aspect</span></span></span>
 <span class="r-in"><span>          main<span class="op">=</span><span class="st">"yates.oats"</span><span class="op">)</span></span></span>
@@ -214,18 +200,18 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>    <span class="fu"><a href="libs.html">libs</a></span><span class="op">(</span><span class="va">asreml</span>,<span class="va">lucid</span><span class="op">)</span></span></span>
 <span class="r-in"><span>    <span class="va">m5a</span> <span class="op">&lt;-</span> <span class="fu">asreml</span><span class="op">(</span><span class="va">yield</span> <span class="op">~</span> <span class="va">nitrof</span> <span class="op">+</span> <span class="va">gen</span>,</span></span>
 <span class="r-in"><span>                  random <span class="op">=</span> <span class="op">~</span> <span class="va">block</span> <span class="op">+</span> <span class="va">block</span><span class="op">:</span><span class="va">gen</span>, data<span class="op">=</span><span class="va">dat2</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m5l</span><span class="op">)</span></span></span>
-<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="https://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m5a</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m5l</span><span class="op">)</span></span></span>
+<span class="r-in"><span>    <span class="fu">lucid</span><span class="fu">::</span><span class="fu"><a href="http://kwstat.github.io/lucid/reference/vc.html" class="external-link">vc</a></span><span class="op">(</span><span class="va">m5a</span><span class="op">)</span></span></span>
 <span class="r-in"><span></span></span>
 <span class="r-in"><span>  <span class="fu">emmeans</span><span class="fu">::</span><span class="fu"><a href="https://rvlenth.github.io/emmeans/reference/emmeans.html" class="external-link">emmeans</a></span><span class="op">(</span><span class="va">m5l</span>, <span class="st">"gen"</span><span class="op">)</span></span></span>
 <span class="r-in"><span>  <span class="fu"><a href="https://rdrr.io/r/stats/predict.html" class="external-link">predict</a></span><span class="op">(</span><span class="va">m5a</span>, data<span class="op">=</span><span class="va">dat2</span>, classify<span class="op">=</span><span class="st">"gen"</span><span class="op">)</span><span class="op">$</span><span class="va">pvals</span></span></span>
 <span class="r-in"><span>  <span class="op">}</span></span></span>
 <span class="r-in"><span>  </span></span>
 <span class="r-in"><span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -234,14 +220,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
 <div class="pkgdown-footer-right">
-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
 </div>
 
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-  
 
-  
+
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diff --git a/reference/zuidhof.broiler.html b/reference/zuidhof.broiler.html
index e648d3c0..5eeec708 100644
--- a/reference/zuidhof.broiler.html
+++ b/reference/zuidhof.broiler.html
@@ -1,56 +1,42 @@
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       <img src="../logo.png" class="logo" alt=""><h1>Daily weight, feed, egg measurements for a broiler chicken</h1>
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+
       <div class="d-none name"><code>zuidhof.broiler.Rd</code></div>
     </div>
 
@@ -79,7 +65,7 @@ <h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a><
     <dt><code>age</code></dt>
 <dd><p>Age, days</p></dd>
 
-  
+
 </dl></div>
     <div class="section level2">
     <h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
@@ -98,7 +84,7 @@ <h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a><
 
     <div class="section level2">
     <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
-    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
+    <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span> <span class="co"># \dontrun{</span></span></span>
 <span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va"><a href="https://kwstat.github.io/agridat/" class="external-link">agridat</a></span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">zuidhof.broiler</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="va">dat</span> <span class="op">&lt;-</span> <span class="va">zuidhof.broiler</span></span></span>
@@ -130,10 +116,10 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 <span class="r-in"><span>       col<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"black"</span>,<span class="st">"black"</span>,<span class="st">"red"</span>,<span class="st">"red"</span>,<span class="st">"red"</span><span class="op">)</span>,</span></span>
 <span class="r-in"><span>       lty<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="op">-</span><span class="fl">1</span>,<span class="fl">1</span>,<span class="fl">2</span>,<span class="fl">1</span>,<span class="fl">1</span><span class="op">)</span>, lwd<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">1</span>,<span class="fl">1</span>,<span class="fl">2</span>,<span class="fl">1</span><span class="op">)</span>, pch<span class="op">=</span><span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">20</span>,<span class="op">-</span><span class="fl">1</span>,<span class="op">-</span><span class="fl">1</span>,<span class="op">-</span><span class="fl">1</span>,<span class="op">-</span><span class="fl">1</span><span class="op">)</span><span class="op">)</span></span></span>
 <span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/par.html" class="external-link">par</a></span><span class="op">(</span><span class="va">op</span><span class="op">)</span></span></span>
-<span class="r-in"><span><span class="op">}</span></span></span>
+<span class="r-in"><span><span class="op">}</span> <span class="co"># }</span></span></span>
 </code></pre></div>
     </div>
-  </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
+  </main><aside class="col-md-3"><nav id="toc" aria-label="Table of contents"><h2>On this page</h2>
     </nav></aside></div>
 
 
@@ -142,14 +128,14 @@ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-e
 </div>
 
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-  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.9.</p>
+  <p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.1.0.</p>
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diff --git a/search.json b/search.json
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-[{"path":"/LICENSE.html","id":null,"dir":"","previous_headings":"","what":"MIT License","title":"MIT License","text":"Copyright (c) 2023 agridat authors Permission hereby granted, free charge, person obtaining copy software associated documentation files (“Software”), deal Software without restriction, including without limitation rights use, copy, modify, merge, publish, distribute, sublicense, /sell copies Software, permit persons Software furnished , subject following conditions: copyright notice permission notice shall included copies substantial portions Software. SOFTWARE PROVIDED “”, WITHOUT WARRANTY KIND, EXPRESS IMPLIED, INCLUDING LIMITED WARRANTIES MERCHANTABILITY, FITNESS PARTICULAR PURPOSE NONINFRINGEMENT. EVENT SHALL AUTHORS COPYRIGHT HOLDERS LIABLE CLAIM, DAMAGES LIABILITY, WHETHER ACTION CONTRACT, TORT OTHERWISE, ARISING , CONNECTION SOFTWARE USE DEALINGS SOFTWARE.","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"rothamsted-library","dir":"Articles","previous_headings":"Other","what":"Rothamsted Library","title":"Additional sources of agricultural data","text":"https://www.rothamsted.ac.uk/library--information-services now scanned PDFs put GitHub repository agridat package. Box uniformity trial data","code":"STATS17  WG Cochran   1. Uniformity trial data.  2. Genstat data. Data received since publication of the catalogue.  1935-1943.  3. Uniformity trial data.  1930-1936.  4. Uniformity trials.  1936-1938.  5. Uniformity trials.  R data.  1936-1937.  6. O. V. S. Heath.  Cotton uniformity trial data.  1934-1935.  7. Data.  Yields of grain per foot length.  1934.  8. Catalogue of field uniformity trial data.  N. d.  9. Demandt.  1931. One box"},{"path":[]},{"path":"/articles/agridat_data.html","id":"die-landwirtschaftlichen-versuchs-stations","dir":"Articles","previous_headings":"Books","what":"“Die Landwirtschaftlichen Versuchs-Stations”","title":"Additional sources of agricultural data","text":"https://catalog.hathitrust.org/Record/000549685 Full view research station reports 1859-1920. German.","code":""},{"path":"/articles/agridat_data.html","id":"d--f--andrews-and-a--m--herzberg-1985--data-","dir":"Articles","previous_headings":"Books","what":"D. F. Andrews and A. M. Herzberg (1985). “Data”.","title":"Additional sources of agricultural data","text":"https://www2.stat.duke.edu/courses/Spring01/sta114/data/andrews.html","code":"Table  2.1: agridat::darwin.maize  Table  5.1: agridat::broadbalk.wheat  Table  6.1: agridat::mercer.wheat.uniformity  Table  6.2: agridat::wiebe.wheat.uniformity  Table 58.1: agridat::caribbean.maize"},{"path":"/articles/agridat_data.html","id":"gemechu-application-of-spatial-mixed-model-in-agricultural-field-experiment","dir":"Articles","previous_headings":"Books","what":"Gemechu, “Application of Spatial Mixed Model in Agricultural Field Experiment”","title":"Additional sources of agricultural data","text":"Dibaba Bayisa Gemechu Aweke, Girma (maybe Girma Taye) Master thesis. Department Statistics, Addis Ababa University. One dataset wheat, RCB, field coordinates. Note: Forkman cites author “D. Bayisa”","code":""},{"path":"/articles/agridat_data.html","id":"m--n--das-narayan-c--giri-1987--design-and-analysis-of-experiments-","dir":"Articles","previous_headings":"Books","what":"M. N. Das & Narayan C. Giri (1987). “Design and Analysis of Experiments”.","title":"Additional sources of agricultural data","text":"","code":"31 wool from 24 ewes, 6 cuttings 116 grass NPK factorial, 3 years, 36 obs 116 2^5 factorial, 1 rep, 32 obs 117 2^3 factorial, 3 rep 117 sugar beet 3^3 factorial, 2 rep, 54 obs 139 alfalfa 3x2^2 factorial 149 cabbage NPK split-plot, xy, 2 rep, 108 obs 150 soybean nitro-variety split-plot 193 wheat variety inc block, 9 block 201 rice variety balanced lattice, 80 obs 279 maize covariate, yield & plant count, 4 rep, 32 obs"},{"path":"/articles/agridat_data.html","id":"peter-diggle-patrick-heagerty-kung-yee-liang-scott-zeger--analysis-of-longitudinal-data-","dir":"Articles","previous_headings":"Books","what":"Peter Diggle, Patrick Heagerty, Kung-Yee Liang, Scott Zeger. “Analysis of Longitudinal Data”.","title":"Additional sources of agricultural data","text":"https://faculty.washington.edu/heagerty/Books/AnalysisLongitudinal/datasets.html Pig weight data found SemiPar::pig.weights Sitka spruce data found : geepack::spruce Milk protein data found : nlme::Milk. thorough description data can found Molenberghs & Kenward, “Missing Data Clinical Studies”, p. 377. Original source: . P. Verbyla B. R. Cullis, Modelling Repeated Measures Experiments.","code":""},{"path":"/articles/agridat_data.html","id":"federer-walt-1955--experimental-design-","dir":"Articles","previous_headings":"Books","what":"Federer, Walt (1955). “Experimental Design”.","title":"Additional sources of agricultural data","text":"","code":"192 3x3 factorial  204 3x2 factorial  236 2x2x2 factorial with confounding  257 2x3x2 factorial with confounding  276 split-plot with layout  285 nested multi-loc (Also problems page 22)  350 cubic lattice  420 balanced inc block  491 Latin square with covariate"},{"path":"/articles/agridat_data.html","id":"finney-1972--an-introduction-to-statistical-science-in-agriculture-","dir":"Articles","previous_headings":"Books","what":"Finney 1972. “An Introduction to Statistical Science in Agriculture”.","title":"Additional sources of agricultural data","text":"Small, mostly simulated data.","code":""},{"path":"/articles/agridat_data.html","id":"galwey-n-w--2014--introduction-to-mixed-modelling-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Galwey, N.W. (2014). “Introduction to Mixed Modelling”, 2nd ed.","title":"Additional sources of agricultural data","text":"https://www.wiley.com/en-us/Introduction++Mixed+Modelling%3A+Beyond+Regression++Analysis++Variance%2C+2nd+Edition-p-9781119945499","code":"2  83 variety x nitro split-plot - agridat::yates.oats  3 104 doubled-haploid barley  3 135 wheat/rye competition, heritability  5 190 chickpea flowering in families  7 250 canola oil gxe, sowing date, rainfall, oil.  Si & Walton 2004.  7 284 pig growth, 4 diets  7 285 sheep milk fat and lactose  7 290 wheat anoxia root porosity, 9 gen  7 291 wool fibers, 3 trt, 21 animals  9 370 alphalpha design (row-column inc block for 2 reps) (not latinized row col) 10 434 hollamby wheat trial - agridat::gilmour.serpentine"},{"path":"/articles/agridat_data.html","id":"grover-deepak-lajpat-rai--experimental-designing-and-data-analysis-in-agriculture-and-biology-","dir":"Articles","previous_headings":"Books","what":"Grover, Deepak & Lajpat Rai. “Experimental Designing And Data Analysis In Agriculture And Biology”.","title":"Additional sources of agricultural data","text":"Agrotech Publishing Academy, 2010. https://archive.org/details/expldesnanddatanalinagblg00023","code":"43 Percent insect survival in 12 rice varieties, 3 reps 50 CRD 57 RCBD 67 Latin Square 85 Sampling, 4 rep, 9 trt, 4 sub-samples agridat::grover.rcb.subsample 88 Split-plot, 3 rep, 2 measurements/plot, plant height (unusual subsample example) 97 Missing plot 105 Latin square with missing plot 115 2^2 factorial, 6 block 118 2^3 factorial, 3 block 120 Two factor asymmetrical, 5 rep 140 2^3 fractional factorial, 3 rep 160 Split-plot (planting date, variety), 3 rep 168 Strip-plot, 3 rep  176 Milk yield with covariate 188 Multi-year nitrogen treatment 197 BIBD 13 varieties 205 Lattice 4 blocks, 3 reps, 16 trt 226 Augmented BIBD 236 Group-divisible 239 PBIB 241 Augmented group-divisible 245 Augmented PBIB 250 6x6 full diallel, 4 rep   agridat::grover.diallel"},{"path":"/articles/agridat_data.html","id":"o-v-s--heath-1970--investigation-by-experiment-","dir":"Articles","previous_headings":"Books","what":"O.V.S. Heath (1970). “Investigation by experiment”.","title":"Additional sources of agricultural data","text":"https://archive.org/details/investigationbye0000heat","code":"23 uniformity trial of radish - agridat::heath.raddish.uniformity 50 uniformity trial of cabbage - agridat::heath.cabbage.uniformity"},{"path":"/articles/agridat_data.html","id":"kwanchai-a--gomez-gomez-1984--statistical-procedures-for-agricultural-research-","dir":"Articles","previous_headings":"Books","what":"Kwanchai A. Gomez & Gomez (1984). “Statistical Procedures for Agricultural Research”.","title":"Additional sources of agricultural data","text":"Extensive collection datasets rice experiments. Many added agridat.","code":""},{"path":"/articles/agridat_data.html","id":"cyril-h--goulden-1939-methods-of-statistical-analysis-","dir":"Articles","previous_headings":"Books","what":"Cyril H. Goulden (1939), “Methods of Statistical Analysis”.","title":"Additional sources of agricultural data","text":"First edition: https://archive.org/details/methodsofstatist031744mbp Second edition: http://krishikosh.egranth.ac./handle/1/2034118 (broken)","code":"18 Uniformity trial - agridat::goulden.barley.uniformity  153 Split-split plot with factorial sub-plot treatment - agridat::goulden.splitsplit  194 Incomplete block  197 Inc block  205 Latin square  208 Inc block  255 Covariates in feeding trial - agridat::crampton.pig 216 Latin square - agridat::goulden.latin  423 Control chart with egg weights - agridat::goulden.eggs"},{"path":"/articles/agridat_data.html","id":"harry-love-1936--applications-of-statistical-methods-to-agricultural-research-","dir":"Articles","previous_headings":"Books","what":"Harry Love (1936). “Applications of Statistical Methods to Agricultural Research”.","title":"Additional sources of agricultural data","text":"","code":"379 MET 4 year, 2 field, 5 block, 5 gen"},{"path":[]},{"path":"/articles/agridat_data.html","id":"kuehl-robert--design-of-experiments-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Kuehl, Robert. “Design of Experiments”, 2nd ed.","title":"Additional sources of agricultural data","text":"","code":"357 alfalfa quadruple lattice 358 alpha design 488 split-plot sorghum hybrid,density 516 alfalfa rcb, two-year 521 crossover design cattle feedstuff"},{"path":"/articles/agridat_data.html","id":"erwin-leclerg-warren-leonard-andrew-clark-1962--field-plot-technique","dir":"Articles","previous_headings":"Books","what":"Erwin LeClerg, Warren Leonard, Andrew Clark (1962). “Field Plot Technique”","title":"Additional sources of agricultural data","text":"https://archive.org/details/fieldplottechniq00leon Many small datasets.","code":"27 uniformity - agridat::goulden.barley.uniformity 213 split-plot 234 immer multi-environment 260 lattice pinto-bean 276 triple lattice cotton 280 lattice sugar beet 289 balanced lattice 336 repeated wheat"},{"path":"/articles/agridat_data.html","id":"thomas-m-little-f--jackson-hills-1978--agricultural-experimentation-","dir":"Articles","previous_headings":"Books","what":"Thomas M Little & F. Jackson Hills (1978). “Agricultural Experimentation”.","title":"Additional sources of agricultural data","text":"","code":"79 Latin square   89 Split-plot  103 Split-split  117 Split-block - agridat::little.splitblock  126 Repeated harvests.  In data-unused. 144 Non-IID errors 155 Square root transform 158 Germination, 3 reps, 24 treatments 261 Response surface, nitrogen, harvest 277 Count data"},{"path":"/articles/agridat_data.html","id":"harald-martens-magni-martens--multivariate-analysis-of-quality","dir":"Articles","previous_headings":"Books","what":"Harald Martens & Magni Martens. “Multivariate Analysis of Quality”","title":"Additional sources of agricultural data","text":"https://www.wiley.com/legacy/wileychi/chemometrics/datasets.html ‘NIR’ data NIR spectra measurements wheat purpose understanding protein quality.","code":""},{"path":"/articles/agridat_data.html","id":"roger-mead-robert-n--curnow-anne-m--hasted-2002--statistical-methods-in-agriculture-and-experimental-biology-3rd-ed-","dir":"Articles","previous_headings":"Books","what":"Roger Mead, Robert N. Curnow, Anne M. Hasted (2002). “Statistical Methods in Agriculture and Experimental Biology”, 3rd ed.","title":"Additional sources of agricultural data","text":"","code":"10 weekly milk yields  24 carrot weight  96 cabbage fertilizer 143 intercropping cowpea maize 177 honeybee repellent non-normal 251 cauliflower poisson - agridat::mead.cauliflower 273 rhubarb RCB covariate 296 onion density 316 lambs 341 germination 350 germination factorial - agridat::mead.germination 352 poppy 359 lamb loglinear - agridat::mead.lambs 375 rats 386 intercrop 390 intercrop cowpea maize - agridat::mead.cowpeamaize 404 apple characteristics (incomplete)"},{"path":"/articles/agridat_data.html","id":"roger-mead-1988--the-design-of-experiments","dir":"Articles","previous_headings":"Books","what":"Roger Mead (1988). “The Design of Experiments”","title":"Additional sources of agricultural data","text":"https://books.google.com/books?id=CaFZPbCllrMC&pg=PA323","code":"323 Turnip spacing data - agridat::mead.turnip"},{"path":"/articles/agridat_data.html","id":"leonard-c--onyiah-2008-","dir":"Articles","previous_headings":"Books","what":"Leonard C. Onyiah (2008).","title":"Additional sources of agricultural data","text":"“Design Analysis Experiments: Classical Regression Approaches SAS”. https://books.google.com/books?id=_P3LBQAAQBAJ&pg=PA334","code":"334 Two examples of 5x5 Graeco-Latin squares in cassava and maize"},{"path":"/articles/agridat_data.html","id":"bernard-ostle-1963--statistics-in-research-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Bernard Ostle (1963). “Statistics in Research”, 2nd ed.","title":"Additional sources of agricultural data","text":"https://archive.org/details/secondeditionsta001000mbp","code":"455 2 factors, 1 covariate - agridat::woodman.pig 458 1 factor, 2 covariates - agridat::crampton.pig"},{"path":"/articles/agridat_data.html","id":"v--g--panse-and-p--v--sukhatme-1957--statistical-methods-for-agricultural-workers-","dir":"Articles","previous_headings":"Books","what":"V. G. Panse and P. V. Sukhatme (1957). “Statistical Methods for Agricultural Workers”.","title":"Additional sources of agricultural data","text":"Note: 1954 edition can found https://archive.org/details/dli.scoerat.949statisticalmethodsforagriculturalworkers/page/138/mode/2up","code":"3 Length and number of grains per ear of wheat 138 Uniformity trial - agridat::panse.cotton.uniformity 154 RCB 8 blocks 167 two factorial, 6 rep trial 178 2^4 factorial, 8 blocks, partial confounding 192 3^3 factorial, 3 reps/9 blocks, partial confounding 200 split-plot, 6 rep 212 strip-plot, 6 rep 219 cotton variety trial, yield & stand counts 256 8x8 simpple lattice, 4 reps 282 5 varieties at 6 locations 295 5 N levels at 5 locations 332 4 regions, 9-11 villages in each region, 3 fertilizer treatments"},{"path":"/articles/agridat_data.html","id":"d--d--paterson-1939--statistical-technique-in-agricultural-research-","dir":"Articles","previous_headings":"Books","what":"D. D. Paterson (1939). “Statistical Technique in Agricultural Research”.","title":"Additional sources of agricultural data","text":"https://archive.org/details/statisticaltechn031729mbp","code":"84 Distribution of purple/white starchy/sweet seeds from 11 ears 190 Sugar cane MET: 2 year, 5 block, 5 variety 199 Tea MET: 3 year, 2^2 factorial fertilizer 206 Grass: 4 rep, 2 gen, 4 cutting treatments 211 Cotton: 4 dates, 3 spacings, 3 irrigation, 2 nitro - agridat::gregory.cotton"},{"path":"/articles/agridat_data.html","id":"roger-petersen-agricultural-field-experiments","dir":"Articles","previous_headings":"Books","what":"Roger Petersen, “Agricultural Field Experiments”","title":"Additional sources of agricultural data","text":"","code":"8 Uniformity trial 18 * 6 plots 56 RCB 4 rep, 5 trt 71 Latin square 5x5 86 Factorial 4x2, 3 rep 97 Factorial 2x3x2, 3 rep 125 Fertilizer trial, 3 rep, 5 levels 136 Split plot variety x planting date, 3 rep 148 Strip plot 2 potash x 3 potassium, 3 rep 170 Augmented breeding trial with 3 checks, 6 inc blocks 174 Inc Block 182 Lattice 5x5, 2 rep 192 GxE 10 gen, 12 env. Stability analysis. 208 Factorial 2x3 at 8 locs, homogeneous variance, early lentils 217 GxE 8 gen, 5 loc, heterogeneous variance 232 Factorial 2x3 at 8 locs, late lentils (see also page 208) 249 On-farm trial, 24 entries, 3 rep RCB 257 Demonstration trials, 5 locs 272 Covariance example, RCB 6 rep, 4rt 278 Multi-year 2x2 factorial, 4 rep 309 Pasture trial 323 On-farm trial, 2 variety 8 loc 327 On-farm trial 6 trt, 5 loc 334 On-farm trial 4 trt, 6 loc 343 On-farm trial 2x3 factorial, 3 loc 351 Feeding trial, 2 trt, 2 periods 357 Intercrop, 2 crops 372 Intercrop, 2 crop, 4 mixtures, 4 rep. agridat::petersen.sorghum.cowpea"},{"path":"/articles/agridat_data.html","id":"richard-plant-spatial-data-analysis-in-ecology-and-agriculture-using-r","dir":"Articles","previous_headings":"Books","what":"Richard Plant, “Spatial Data Analysis in Ecology and Agriculture using R”","title":"Additional sources of agricultural data","text":"https://psfaculty.plantsciences.ucdavis.edu/plant/","code":""},{"path":"/articles/agridat_data.html","id":"arthur-asquith-rayner-1969--a-first-course-in-biometry-for-agriculture-students-","dir":"Articles","previous_headings":"Books","what":"Arthur Asquith Rayner (1969). “A First Course In Biometry For Agriculture Students”.","title":"Additional sources of agricultural data","text":"","code":"19 456 2x2x4 Factorial, 2 rep 19 466 2x4 factorial, layout, plot size, kale (from Rothamsted) 19 466 3x5 factorial, 3 rep, potato 20 494 3x4 Split-plot with layout 21 505 2x2x2 Factorial, 5 rep 21 515 2x2x2x2 Factorial, 3 rep, with layout. (Evaluated, rejected as too variable) 22 537 2x2x2 factorial, 6 rep, potato 22 537 2x2x2x2 factorial, 2 rep, wheat, layout"},{"path":"/articles/agridat_data.html","id":"f-s-f--shaw-1936--a-handbook-of-statistics-for-use-in-plant-breeding-and-agricultural-problems","dir":"Articles","previous_headings":"Books","what":"F.S.F. Shaw (1936). “A Handbook of Statistics For Use in Plant Breeding and Agricultural Problems”","title":"Additional sources of agricultural data","text":"https://archive.org/details/.ernet.dli.2015.176662","code":"5 Length of ear head and number of grains per ear, 400 ears. 95 variety RCB, 5 gen, 25 rep, diagonal layout 107 Latin square, 8 entries. 117 Factorial: 8 blocks, 3 varieties, 5 treatments, 2 infections 126 Multi-environment trial, 3 year, 13 varieties, 2 loc, 5 blocks  agridat::shaw.oats"},{"path":"/articles/agridat_data.html","id":"g--w--snedecor-w--g--cochran--statistical-methods-","dir":"Articles","previous_headings":"Books","what":"G. W. Snedecor & W. G. Cochran. “Statistical Methods”.","title":"Additional sources of agricultural data","text":"","code":"168 regression 352 3x3 factorial, 4 blocks 359 2x2x2 factorial, 8 blocks, daily pig gain 362 2x3x4 factorial, 2 blocks, daily pig gain 371 3x4 split-plot, 3 var, 4 date, 6 blocks 374 2x3x3 split-split-plot, irrig, stand, fert, block 378 4x4 split-plot, 4 block, 4 year, 4 cuttings asparagus 384 regression with 2 predictors 428 covariates, 6 varieties, 4 blocks, yield vs stand 440 pig gain vs initial weight, 4 treatments, 40 pigs 454 protein vs yield for wheat, 91 plots, quadratic regression"},{"path":"/articles/agridat_data.html","id":"robert-g--d--steel-james-hiram-torrie--principles-and-procedures-of-statistics-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Robert G. D. Steel & James Hiram Torrie. “Principles and Procedures of Statistics”, 2nd ed.","title":"Additional sources of agricultural data","text":"","code":"154 Mint plant growth, 2-way + pot + plant 244 Trivariate data 319 Regression with three predictors 384 Split-plot yield 387 Split-plot row spacing 400 Soybean 3 loc 423 Pig weight gain 429 Guinea pig weight gain 434 Soybean lodging"},{"path":"/articles/agridat_data.html","id":"oliver-schabenberger-and-francis-j--pierce--contemporary-statistical-models-for-the-plant-and-soil-sciences-","dir":"Articles","previous_headings":"Books","what":"Oliver Schabenberger and Francis J. Pierce. “Contemporary Statistical Models for the Plant and Soil Sciences”.","title":"Additional sources of agricultural data","text":"Many datasets. added agridat.","code":""},{"path":"/articles/agridat_data.html","id":"s--j--welham-et-al--2015--statistical-methods-in-biology-","dir":"Articles","previous_headings":"Books","what":"S. J. Welham et al. (2015). “Statistical Methods In Biology”.","title":"Additional sources of agricultural data","text":"online-supplements contain many small datasets examples exercises.","code":""},{"path":"/articles/agridat_data.html","id":"pesticides-in-the-nations-streams-and-ground-water-1992-2001","dir":"Articles","previous_headings":"Books","what":"Pesticides in the Nation’s Streams and Ground Water, 1992-2001","title":"Additional sources of agricultural data","text":"Extensive data detection pesticides water samples. See Appendix 5 Appendix 6 supporting info. https://water.usgs.gov/nawqa/pnsp/pubs/circ1291/supporting_info.php","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"ag-data-commons","dir":"Articles","previous_headings":"Data Repositories","what":"Ag Data Commons","title":"Additional sources of agricultural data","text":"https://data.nal.usda.gov/-ag-data-commons https://data.nal.usda.gov/search/type/dataset","code":""},{"path":"/articles/agridat_data.html","id":"cyverse-data-commons","dir":"Articles","previous_headings":"Data Repositories","what":"CyVerse Data Commons","title":"Additional sources of agricultural data","text":"https://datacommons.cyverse.org/ https://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"harvard-dataverse","dir":"Articles","previous_headings":"Data Repositories","what":"Harvard Dataverse","title":"Additional sources of agricultural data","text":"https://dataverse.harvard.edu/ IRRI Rice Research includes plot-level data long term rice experiments. https://dataverse.harvard.edu/dataverse/RiceResearch","code":""},{"path":"/articles/agridat_data.html","id":"kellogg-biological-station-long-term-research","dir":"Articles","previous_headings":"Data Repositories","what":"Kellogg Biological Station Long-Term Research","title":"Additional sources of agricultural data","text":"KBS037:Precision Agriculture Yield Monitoring Row Crop Agriculture https://lter.kbs.msu.edu/datasets/40 https://doi.org/10.6073/pasta/423c07d6ea3317c545beabb4b8e502c8 Yield monitor data across several years crops. Un-friendly license.","code":""},{"path":"/articles/agridat_data.html","id":"nature-scientific-data","dir":"Articles","previous_headings":"Data Repositories","what":"Nature Scientific Data","title":"Additional sources of agricultural data","text":"https://www.nature.com/sdata/","code":""},{"path":"/articles/agridat_data.html","id":"open-data-journal-for-agricultural-research","dir":"Articles","previous_headings":"Data Repositories","what":"Open Data Journal for Agricultural Research","title":"Additional sources of agricultural data","text":"https://library.wur.nl/ojs/index.php/odjar/","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"wolfram-data-repository","dir":"Articles","previous_headings":"Data Repositories","what":"Wolfram Data Repository","title":"Additional sources of agricultural data","text":"https://datarepository.wolframcloud.com/","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"iowa-state-agricultural-research-bulletins","dir":"Articles","previous_headings":"Journals - Bulletins","what":"Iowa State Agricultural Research Bulletins","title":"Additional sources of agricultural data","text":"https://lib.dr.iastate.edu/ag_researchbulletins/","code":"Vol 26/ 281. Cox: Analysis of Lattice and Triple Lattice. Page 11: Lattice, 81 hybs, 4 reps  Page 24: Triple lattice, 81 hybs, 6 reps  Vol 29/347. Homeyer. Punched Card and Calculating Machine Methods for Analyzing    Lattice Experiments Including Lattice Squares and the Cubic Lattice. Page 37: Triple lattice (9 blocks * 9 hybrids) with 6 reps. Page 60: Simple lattice, 8 blocks * 8 hybrids, 4 reps. Page 76: Balanced lattice, 25 hybrids  Page 87: Lattice square with (k+1)/2 reps, 121 hybrids, 6 rep  Page 109: Lattice square with k+1 reps, 7 blocks * 7 hyb, 8 reps  Page 126: Cubic lattice, 16 blocks * 4 plots = 64 varieties, 9 reps, cotton  Vol 32/396. Wassom. Bromegrass Uniformity Trial: agridat::wassom.bromegrass.uniformity  Vol 33/424. Heady. Crop Response Surfaces and Economic Optima in    Fertilizer - agridat::heady.fertilizer  Vol 34/358. Schwab. Research on Irrigation of Corn and Soybeans At Conesville. Page 257. 2 year, 2 loc, 4 rep, 2 nitro. Stand & yield.   Nice graph of soil moisture deficit (fig 9)  Vol. 34/463. Doll. Fertilizer Production Functions for Corn and Oats. Table 1, 1954 Clarion Loam.  N,P,K. Table 14, 1955 McPaul Silt Loam.  N,P. Table 25, 1955 corn.  K,P,N. Table 31, 1956 oats, K,P,N.  Trends difficult to establish.  Vol 34/472. Pesek. Production Surfaces and Economic Optima For Corn Yields.   Same data published in SSA journal?  Vol 34/488. Walker. Application of Game Theory Models to Decisions.  Vol 35/494. North Central Regional Potassium Studies with Alfalfa. Page 176. Two years, several locs per state, multiple states, multiple fertilizer    levels, multiple cuttings. Soil test attributes. Page 183. Yield and %K.  Vol 35/503. North Central Regional Potassium Studies with Corn."},{"path":[]},{"path":"/articles/agridat_data.html","id":"bakare-et-al","dir":"Articles","previous_headings":"Papers","what":"Bakare et al","title":"Additional sources of agricultural data","text":"Exploring genotype environment interaction cassava yield yield related traits using classical statistical methods https://doi.org/10.1371/journal.pone.0268189 36 gen, 20 env, 3 rep. Analysis data : https://github.com/mab658/classical_analysis_GxE","code":""},{"path":"/articles/agridat_data.html","id":"chaves-2023-et-al","dir":"Articles","previous_headings":"Papers","what":"Chaves 2023 et al","title":"Additional sources of agricultural data","text":"Analysis multi-harvest data mixed models: application Theobroma grandiflorum breeding https://acsess.onlinelibrary.wiley.com/doi/epdf/10.1002/csc2.20995 Nice. Complete data R code. found FA3 best genetic covariances, AR1H best residual structure. Used FAST OP (Cullis) selection.","code":""},{"path":"/articles/agridat_data.html","id":"cleveland-m-a--and-john-m--hickey-selma-forni-2012-","dir":"Articles","previous_headings":"Papers","what":"Cleveland, M.A. and John M. Hickey, Selma Forni (2012).","title":"Additional sources of agricultural data","text":"Common Dataset Genomic Analysis Livestock Populations. G3, 2, 429-435. https://doi.org/10.1534/g3.111.001453 supplemental information paper contains data 3534 pigs high-density genotypes (50000 SNPs), pedigree including parents grandparents animals.","code":""},{"path":"/articles/agridat_data.html","id":"coelho-2021-et-al","dir":"Articles","previous_headings":"Papers","what":"Coelho 2021 et al","title":"Additional sources of agricultural data","text":"Accounting spatial trends multi-environment diallel analysis maize breeding https://doi.org/10.1371/journal.pone.0258473 78 hybrids diallel, 4 environments, 3 reps. Compared spatial non-spatial analyses.","code":""},{"path":"/articles/agridat_data.html","id":"daillant-spinnler-1996--relationships-between-perceived-sensory-properties-and-major-preference-directions-of-12-variaties-of-apples-from-the-southern-hemisphere-","dir":"Articles","previous_headings":"Papers","what":"Daillant-Spinnler (1996). Relationships between perceived sensory properties and major preference directions of 12 variaties of apples from the southern hemisphere.","title":"Additional sources of agricultural data","text":"Food Quality Preference, 7(2), 113-126. https://doi.org/10.1016/0950-3293(95)00043-7 data ClustVarLV::apples_sh$pref ClustVarLV::apples_sh$senso 12 apple varieties, 43 traits, 60 consumers","code":""},{"path":"/articles/agridat_data.html","id":"gregory-crowther-lambert-1932--the-interrelation-of-factors-controlling-the-production-of-cotton-under-irrigation-in-the-sudan-","dir":"Articles","previous_headings":"Papers","what":"Gregory, Crowther & Lambert (1932). The interrelation of factors controlling the production of cotton under irrigation in the Sudan.","title":"Additional sources of agricultural data","text":"Jour Agric Sci, 22, p. 617.","code":""},{"path":"/articles/agridat_data.html","id":"hedrick-1920-","dir":"Articles","previous_headings":"Papers","what":"Hedrick (1920).","title":"Additional sources of agricultural data","text":"Twenty years fertilizers apple orchard. https://books.google.com/books?hl=en&lr=&id=SqlJAAAAMAAJ&oi=fnd&pg=PA446 authors found significant differences fertilizer treatments.","code":""},{"path":"/articles/agridat_data.html","id":"meehan-gratton-2016-","dir":"Articles","previous_headings":"Papers","what":"Meehan & Gratton (2016).","title":"Additional sources of agricultural data","text":"Landscape View Agricultural Insecticide Use across Conterminous US 1997 2012. PLOS ONE, https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0166724 Supplemental material contains county-level data 4 years. Complete R-INLA code analysis.","code":""},{"path":"/articles/agridat_data.html","id":"monteverde-et-al","dir":"Articles","previous_headings":"Papers","what":"Monteverde et al","title":"Additional sources of agricultural data","text":"Integrating Molecular Markers Environmental Covariates Interpret Genotype Environment Interaction Rice (Oryza sativa L.) Grown Subtropical Areas https://doi.org/10.1534/g3.119.400064 https://gsajournals.figshare.com/articles/dataset/Supplemental_Material_for_Monteverde_et_al_2019/7685636 Supplemental information contains phenotypic data markers environmental covariates PLS analysis.","code":""},{"path":"/articles/agridat_data.html","id":"kenward-michael-g--1987-","dir":"Articles","previous_headings":"Papers","what":"Kenward, Michael G. (1987).","title":"Additional sources of agricultural data","text":"Method Comparing Profiles Repeated Measurements. Applied Statistics, 36, 296-308. ante-dependence model fit repeated measures cattle weight.","code":""},{"path":"/articles/agridat_data.html","id":"klumper-qaim-2015-","dir":"Articles","previous_headings":"Papers","what":"Klumper & Qaim (2015).","title":"Additional sources of agricultural data","text":"Meta-Analysis Impacts Genetically Modified Crops. https://doi.org/10.1371/journal.pone.0111629 Nice meta-analysis dataset. Published data include differences, standard-errors. See comments PLOS article peculiarities data.","code":""},{"path":"/articles/agridat_data.html","id":"lado-b--et-al--2013-","dir":"Articles","previous_headings":"Papers","what":"Lado, B. et al. (2013).","title":"Additional sources of agricultural data","text":"“Increased Genomic Prediction Accuracy Wheat Breeding Spatial Adjustment Field Trial Data”. G3, 3, 2105-2114. https://doi.org/10.1534/g3.113.007807 large haplotype dataset (83 MB) two-year phenotype data multiple traits.","code":""},{"path":"/articles/agridat_data.html","id":"oakey-cullis-thompson-2016","dir":"Articles","previous_headings":"Papers","what":"Oakey, Cullis, Thompson 2016","title":"Additional sources of agricultural data","text":"Genomic Selection Multi-environment Crop Trials https://www.g3journal.org/content/6/5/1313 http://www.g3journal.org/content/6/5/1313/suppl/DC1 648 genotypes planted pots yr 1, 856 lines yr 2, 639 common years. 7864 SNP markerks","code":""},{"path":"/articles/agridat_data.html","id":"peixoto-marco-antonio-et-al-2020","dir":"Articles","previous_headings":"Papers","what":"Peixoto, Marco Antonio et al (2020)","title":"Additional sources of agricultural data","text":"Random regression modeling yield genetic trajectories Jatropha curcas breeding. https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0244021 Repeated measurements six years. Data supplemental Word doc.","code":""},{"path":"/articles/agridat_data.html","id":"perez-valencia-2022-","dir":"Articles","previous_headings":"Papers","what":"Perez-Valencia (2022).","title":"Additional sources of agricultural data","text":"two‑stage approach spatio‑temporal analysis high‑throughput phenotyping data. https://doi.org/10.1038/s41598-022-06935-9 Time-series data individual plots field many genotypes.","code":""},{"path":"/articles/agridat_data.html","id":"roger-w--hexem-earl-o-heady-metin-caglar-1974","dir":"Articles","previous_headings":"Papers","what":"Roger W. Hexem, Earl O.Heady, Metin Caglar (1974)","title":"Additional sources of agricultural data","text":"compendium experimental data corn, wheat, cotton sugar beets grown selected sites western United States alternative production functions fitted data. Technical report: Center Agricultural Rural Development, Iowa State University. https://babel.hathitrust.org/cgi/pt?id=wu.89031116783;view=1up;seq=3 technical report provides data experiments corn, wheat, cotton & sugar beets, crop tested several locations two years, factorial structure irrigation nitrogen treatments, replications. Three polynomial functions fit data location (quadratic, square root, three-halves).","code":""},{"path":"/articles/agridat_data.html","id":"snedecor-george-and-e--s--haber-1946-","dir":"Articles","previous_headings":"Papers","what":"Snedecor, George and E. S. Haber (1946).","title":"Additional sources of agricultural data","text":"Statistical Methods Incomplete Experiment Perennial Crop. Biometrics Bulletin, 2, 61-67. https://www.jstor.org/stable/3001959 Harvest asparagus 10 years, three cutting dates per year, 6 blocks.","code":""},{"path":"/articles/agridat_data.html","id":"tanaka-takashi-x--t-","dir":"Articles","previous_headings":"Papers","what":"Tanaka, Takashi X. T.","title":"Additional sources of agricultural data","text":"Assessment design analysis frameworks -farm experimentation simulation study wheat yield Japan. https://github.com/takashit754/geostat Yield-monitor data 3 fields.","code":""},{"path":"/articles/agridat_data.html","id":"technow-frank-et-al--2014-","dir":"Articles","previous_headings":"Papers","what":"Technow, Frank, et al. (2014).","title":"Additional sources of agricultural data","text":"Genome Properties Prospects Genomic Prediction Hybrid Performance Breeding Program Maize. August 1, 2014 vol. 197 . 4 1343-1355. https://doi.org/10.1534/genetics.114.165860 Genotype phenotype data appears sommer package.","code":""},{"path":"/articles/agridat_data.html","id":"tian-ting-2015-","dir":"Articles","previous_headings":"Papers","what":"Tian, Ting (2015).","title":"Additional sources of agricultural data","text":"Application Multiple Imputation Missing Values Three-Way Three-Mode Multi-Environment Trial Data. https://doi.org/10.1371/journal.pone.0144370 Uses agridat::australia.soybean data one real dataset 4 traits identified. data code available.","code":""},{"path":"/articles/agridat_data.html","id":"randall-j--wisser-et-al--2011-","dir":"Articles","previous_headings":"Papers","what":"Randall J. Wisser et al. (2011).","title":"Additional sources of agricultural data","text":"Multivariate analysis maize disease resistances suggests pleiotropic genetic basis implicates GST gene. PNAS. https://doi.org/10.1073/pnas.1011739108 supplement contains genotype data, phenotype data.","code":""},{"path":"/articles/agridat_data.html","id":"rife-et-al--2018","dir":"Articles","previous_headings":"Papers","what":"Rife et al. (2018)","title":"Additional sources of agricultural data","text":"Genomic analysis prediction within US public collaborative winter wheat regional testing nursery. https://doi.org/10.5061/dryad.q968v83 Large phenotypic dataset 691 wheat lines, 33 years, 670 environments, 3-4 reps, 120000 datapoints. genotypic data included.","code":""},{"path":"/articles/agridat_data.html","id":"schmitz-carley-et-al-2018","dir":"Articles","previous_headings":"Papers","what":"Schmitz Carley et al (2018)","title":"Additional sources of agricultural data","text":"Genetic Covariance Environments Potato National Chip Processing Trial https://dl.sciencesocieties.org/publications/cs/articles/59/1/107 Supp 2 contains genomic data, easy way find phenotypic data.","code":""},{"path":"/articles/agridat_data.html","id":"van-der-voet-et-al--2017-","dir":"Articles","previous_headings":"Papers","what":"van der Voet et al. (2017).","title":"Additional sources of agricultural data","text":"Equivalence testing using existing reference data: example genetically modified conventional crops animal feeding studies. https://doi.org/10.1016/j.fct.2017.09.044 full datasets GRACE studies -E available : https://www.cadima.info/index.php/area/publicAnimalFeedingTrials CC license.","code":""},{"path":"/articles/agridat_data.html","id":"xavier-alencar-et-al--","dir":"Articles","previous_headings":"Papers","what":"Xavier, Alencar et al..","title":"Additional sources of agricultural data","text":"Genome-Wide Analysis Grain Yield Stability Environmental Interactions Multiparental Soybean Population. https://doi.org/10.1534/g3.117.300300 Data SoyNAM NAM packages.","code":""},{"path":"/articles/agridat_data.html","id":"yan-weikei-2002-","dir":"Articles","previous_headings":"Papers","what":"Yan, Weikei (2002).","title":"Additional sources of agricultural data","text":"Singular value partitioning biplots. Agron Journal. Winter wheat, 31 gen 8 loc. data different Yan’s earlier papers. Unfortunately, data given paper missing two rows.","code":""},{"path":"/articles/agridat_data.html","id":"r-packages-on-cran-github-etc-","dir":"Articles","previous_headings":"","what":"R packages on CRAN, Github, etc.","title":"Additional sources of agricultural data","text":"See also: https://cran.r-project.org/web/views/Agriculture.html","code":""},{"path":"/articles/agridat_data.html","id":"agml","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"AgML","title":"Additional sources of agricultural data","text":"https://github.com/Project-AgML/AgML Datasets agricultural machine learning image classification, semantic segmentation, object detection, etc.","code":""},{"path":"/articles/agridat_data.html","id":"agricensdata","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agriCensData","title":"Additional sources of agricultural data","text":"https://github.com/OnofriAndreaPG/agriCensData Three datasets censored observations paper “Analyzing interval-censored data agricultural research: review examples software tips”.","code":""},{"path":"/articles/agridat_data.html","id":"agritutorial","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agriTutorial","title":"Additional sources of agricultural data","text":"https://myaseen208.github.io/agriTutorial/ Five datasets used illustrate analyses.","code":""},{"path":"/articles/agridat_data.html","id":"agricolae","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agricolae","title":"Additional sources of agricultural data","text":"assorted data functions analysis agricultural data.","code":""},{"path":"/articles/agridat_data.html","id":"agrobiodata","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agroBioData","title":"Additional sources of agricultural data","text":"https://github.com/OnofriAndreaPG/agroBioData Datasets agriculture applied biology. Referenced blog: https://www.statforbiology.com/","code":""},{"path":"/articles/agridat_data.html","id":"aml---adaptive-mixed-lasso","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"aml - Adaptive Mixed LASSO","title":"Additional sources of agricultural data","text":"Data aml::wheat genetic phenotypic data wheat. Modest size.","code":""},{"path":"/articles/agridat_data.html","id":"bglr---bayesian-generalized-linear-regression-","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"BGLR - Bayesian Generalized Linear Regression.","title":"Additional sources of agricultural data","text":"matrix (pedigree) 499 genotypes 4 locations.","code":""},{"path":"/articles/agridat_data.html","id":"blr---bayesian-linear-regression-","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"BLR - Bayesian Linear Regression.","title":"Additional sources of agricultural data","text":"matrix (pedigree) 499 genotypes 4 locations.","code":""},{"path":"/articles/agridat_data.html","id":"bsagri","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"BSagri","title":"Additional sources of agricultural data","text":"Safety assessment agriculture trials","code":""},{"path":"/articles/agridat_data.html","id":"clustvarlv","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"ClustVarLV","title":"Additional sources of agricultural data","text":"Data apples_sh sensory attributes preference scores 12 apple varieties.","code":""},{"path":"/articles/agridat_data.html","id":"cropcc---climate-change-on-crops","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"cropcc - Climate change on crops","title":"Additional sources of agricultural data","text":"https://r-forge.r-project.org/projects/cropcc/","code":""},{"path":"/articles/agridat_data.html","id":"drc---dose-response-curves","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"drc - Dose response curves","title":"Additional sources of agricultural data","text":"nice herbicide dose response curves germination data mungbean, rice, wheat.","code":""},{"path":"/articles/agridat_data.html","id":"epiphy","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"epiphy","title":"Additional sources of agricultural data","text":"https://github.com/chgigot/epiphy Contains 10 historical datasets plant disease epidemics.","code":""},{"path":"/articles/agridat_data.html","id":"fw---finlay-wilkinson-regression","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"FW - Finlay-Wilkinson regression","title":"Additional sources of agricultural data","text":"https://github.com/lian0090/FW/ phenotype data marker data 599 wheat lines 4 environments.","code":""},{"path":"/articles/agridat_data.html","id":"ggenealogy","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"ggenealogy","title":"Additional sources of agricultural data","text":"https://doi.org/10.18637/jss.v089.i13 Data sbGeneal contains soybean pedigree 230 varieties.","code":""},{"path":"/articles/agridat_data.html","id":"grbase","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"gRbase","title":"Additional sources of agricultural data","text":"Data gRbase::carcass: thickness meat fat slaughter pigs","code":""},{"path":"/articles/agridat_data.html","id":"lmdiallel","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"lmDiallel","title":"Additional sources of agricultural data","text":"https://github.com/OnofriAndreaPG/lmDiallel/tree/master/data","code":""},{"path":"/articles/agridat_data.html","id":"lmtest","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"lmtest","title":"Additional sources of agricultural data","text":"Data lmtest::ChickEgg time series annual chicken egg production United States 1930-1983.","code":""},{"path":"/articles/agridat_data.html","id":"nada","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"NADA","title":"Additional sources of agricultural data","text":"Data Atra Recon contain measurements Atrazine water samples.","code":""},{"path":"/articles/agridat_data.html","id":"nlraa","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"nlraa","title":"Additional sources of agricultural data","text":"Miguez. Non-linear models agriculture. nlraa::sm = agridat::miguez.biomass Vignettes functions working (non)linear mixed models","code":""},{"path":"/articles/agridat_data.html","id":"nlme","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"nlme","title":"Additional sources of agricultural data","text":"nlme::Orange: Growth orange trees nlme::Soybean: Growth soybean plants. book “Nonlinear Models Repeated Measurement Data”.","code":""},{"path":"/articles/agridat_data.html","id":"ofpe---on-farm-precision-experiments","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"OFPE - On-Farm Precision Experiments","title":"Additional sources of agricultural data","text":"https://paulhegedus.github.io/OFPE-Website/ https://github.com/paulhegedus/OFPEDATA/","code":""},{"path":"/articles/agridat_data.html","id":"onfant-dataset","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"onfant.dataset","title":"Additional sources of agricultural data","text":"https://github.com/AnabelleLaurent/onfant.dataset","code":""},{"path":"/articles/agridat_data.html","id":"pbkrtest","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"pbkrtest","title":"Additional sources of agricultural data","text":"pbkrtest::beets Yield percent sugar split-plot experiment.","code":""},{"path":"/articles/agridat_data.html","id":"plantbreeding","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"plantbreeding","title":"Additional sources of agricultural data","text":"https://r-forge.r-project.org/projects/plantbreeding/","code":"Data: fulldial Data: linetester Data: peanut - same as agridat::kang.peanut"},{"path":"/articles/agridat_data.html","id":"sdaa---survey-data-and-analysis","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SDaA - Survey Data and Analysis","title":"Additional sources of agricultural data","text":"package county-level data United States Census Agriculture, along vignette illustrate survey sampling analyses.","code":""},{"path":"/articles/agridat_data.html","id":"semipar","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SemiPar","title":"Additional sources of agricultural data","text":"Data: SemiPar::onions agridat::ratkowski.onions","code":""},{"path":"/articles/agridat_data.html","id":"soildb","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"soilDB","title":"Additional sources of agricultural data","text":"https://ncss-tech.github.io/AQP/soilDB/soilDB-Intro.html Soil database interface.","code":""},{"path":"/articles/agridat_data.html","id":"sommer---solving-mixed-model-equations-in-r","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"sommer - Solving mixed model equations in R","title":"Additional sources of agricultural data","text":"Data: h2. Modest-sized GxE experiment potato Data: cornHybrid. Yield/PLTHT 100 hybrids 20 inbred * 20 inbred, 4 locs. Phenotype relationship matrix. Data: Data: RICE Data: FDdata taken agridat::bond.diallel Data:","code":"data(DT_wheat) #  CIMMYT wheat data DT_wheat # 599 varieties, yield in 4 envts GT_wheat # 599 varieties, 1279 markers coded -1,1 data(DT_technow) # From http://www.genetics.org/content/197/4/1343.supplemental DT <- DT_technow  # 1254 hybs, parents, GY=yield, GM=moisture Md <- Md_technow  # 123 dent parents, 35478 markers Mf <- Mf_technow  # 86 flint parents, 37478 markers Ad <- Ad_technow  # 123 x 123 A matrix  Af <- Af_technow  # 86 x 85 A matrix"},{"path":"/articles/agridat_data.html","id":"soynam---soybean-nested-association-mapping","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SoyNAM - Soybean nested association mapping","title":"Additional sources of agricultural data","text":"Dataset phenotype data 3 yr, 9 locations, 18 environments, 60 thousand observations height, maturity, lodging, moisture, protein, oil, fiber, seed size. 5000+ strains, 40 families. Data formatted analysis NAM package available following command: SoyNAM::ENV().","code":""},{"path":"/articles/agridat_data.html","id":"soyurt","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SoyURT","title":"Additional sources of agricultural data","text":"https://github.com/mdkrause/SoyURT Large historical data study GxE identify mega-environments genetic non-genetic factors.","code":""},{"path":"/articles/agridat_data.html","id":"spdep","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"spdep","title":"Additional sources of agricultural data","text":"vignette ‘Problem Spatial Autocorrelation: forty years ’ examines agriculture Irish counties. See also data ade4::irishdata.","code":""},{"path":"/articles/agridat_data.html","id":"spurs","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"spuRs","title":"Additional sources of agricultural data","text":"Data: spuRs::trees data 107 trees cut cross sections volume calculated roughly 10-year increments. subset much-larger original data Guttenberg: https://archive.org/stream/wachstumundertra00gutt","code":""},{"path":"/articles/agridat_data.html","id":"statforbiology","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"StatForBiology","title":"Additional sources of agricultural data","text":"https://www.statforbiology.com/ Blog posts example analyses.","code":""},{"path":"/articles/agridat_data.html","id":"biometris---statgengxe","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"Biometris - statgenGxE","title":"Additional sources of agricultural data","text":"https://github.com/Biometris/statgenGxE https://biometris.github.io/statgenGxE/ AMMI, FW, GGE stability analyses.","code":""},{"path":"/articles/agridat_data.html","id":"biometris---statgengwas","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"Biometris - statgenGWAS","title":"Additional sources of agricultural data","text":"https://github.com/Biometris/statgenGWAS/ https://CRAN.R-project.org/package=statgenGWAS nice package full GxE data marker data 41722 loci 246 lines. 256 hybrids, 29 envts across 2 years, multi-trait (yield, silking, pltht, earht, etc). Includes worked example data : https://data.inra.fr/dataset.xhtml?persistentId=doi:10.15454/IASSTN publication: Millet 2016, Genome-Wide Analysis Yield Europe: Allelic Effects Vary Drought Heat Scenarios, https://academic.oup.com/plphys/article/172/2/749/6115953","code":""},{"path":"/articles/agridat_data.html","id":"biometris---statgensta","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"Biometris - statgenSTA","title":"Additional sources of agricultural data","text":"https://github.com/Biometris/statgenSTA/ https://CRAN.R-project.org/package=statgenSTA Analysis phenotypic data field experiments using SpATS, lme4, asreml.","code":""},{"path":"/articles/agridat_data.html","id":"st4gi---stat-for-genetic-improvement","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"st4gi - Stat for genetic improvement","title":"Additional sources of agricultural data","text":"https://github.com/reyzaguirre/st4gi","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"ars-oat-trials","dir":"Articles","previous_headings":"Web sites","what":"ARS oat trials","title":"Additional sources of agricultural data","text":"https://www.ars.usda.gov/Main/docs.htm?docid=8419&page=4","code":""},{"path":"/articles/agridat_data.html","id":"cimmyt-research-data","dir":"Articles","previous_headings":"Web sites","what":"CIMMYT Research Data","title":"Additional sources of agricultural data","text":"https://data.cimmyt.org/dataverse/cimmytdatadvn","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"grain-genes","dir":"Articles","previous_headings":"Web sites","what":"Grain genes","title":"Additional sources of agricultural data","text":"https://wheat.pw.usda.gov/ggpages/HxT/ Harrington x TR306 Barley Mapping Population. genotype phenotype data comes Mapmaker, seems slightly non-standard format; 145 DH lines, 217 markers, 25 env, 1 rep. https://wheat.pw.usda.gov/ggpages/SxM/ . data agridat::steptoe.morex.","code":""},{"path":"/articles/agridat_data.html","id":"glten---a-network-of-long-term-trials-around-the-world","dir":"Articles","previous_headings":"Web sites","what":"GLTEN - A network of Long-Term trials around the world","title":"Additional sources of agricultural data","text":"https://glten.org/","code":""},{"path":"/articles/agridat_data.html","id":"ideals","dir":"Articles","previous_headings":"Web sites","what":"Ideals","title":"Additional sources of agricultural data","text":"https://www.ideals.illinois.edu/handle/2142/3528 Data File : Raw data ear analyzed year Illinois long-term selection experiment oil protein corn (1896-2004)","code":""},{"path":"/articles/agridat_data.html","id":"international-potato-center","dir":"Articles","previous_headings":"Web sites","what":"International Potato Center","title":"Additional sources of agricultural data","text":"https://data.cipotato.org/dataverse.xhtml","code":""},{"path":"/articles/agridat_data.html","id":"ilri-international-livestock-research-institute","dir":"Articles","previous_headings":"Web sites","what":"ILRI International Livestock Research Institute","title":"Additional sources of agricultural data","text":"Case study 4 nice diallel example sheep data. Available agridat::ilri.sheep","code":""},{"path":"/articles/agridat_data.html","id":"irri-biometrics-and-breeding-informatics","dir":"Articles","previous_headings":"Web sites","what":"IRRI Biometrics and Breeding Informatics","title":"Additional sources of agricultural data","text":"http://bbi.irri.org/products STAR, PBTools, CropStat. STAR user guide well-documented data (even using 2 agridat), PBTools user guide document data.","code":""},{"path":"/articles/agridat_data.html","id":"miappe-minimum-information-about-plant-phenotyping-experiments","dir":"Articles","previous_headings":"Web sites","what":"MIAPPE Minimum Information About Plant Phenotyping Experiments","title":"Additional sources of agricultural data","text":"https://www.miappe.org/ limited data.","code":""},{"path":"/articles/agridat_data.html","id":"rothamsted-electronic-archive","dir":"Articles","previous_headings":"Web sites","what":"Rothamsted Electronic Archive","title":"Additional sources of agricultural data","text":"http://www.era.rothamsted.ac.uk/index.php Data Broadbalk long-term experiments. Github draft data: https://github.com/Rothamsted-Ecoinformatics/YieldbookDatasetDrafts","code":""},{"path":"/articles/agridat_data.html","id":"rothamsted-documents-archive","dir":"Articles","previous_headings":"Web sites","what":"Rothamsted Documents Archive","title":"Additional sources of agricultural data","text":"http://www.era.rothamsted.ac.uk/eradoc/collections.php Annual reports Rothamsted 1908-1987. Many data, especially early years (WWII) data given ‘Classical Experiments’.","code":"Year, page 1908-1926  1926-1927 agridat::sawyer.multi.uniformity  1927-1928 agridat::sawyer.multi.uniformity 1929-1930 1931,143 agridat::yates.oats 1932 1933 1934,215-222 Sugar beet multi-environment trial with 3^3 fertilizer    treatments at each site Roots, SugarPercent, SugarWeight, PlantNumber, Tops, Purity. 1935 1936,241 Similar to the 1934 experiment, but only gives the main effects,    not the actual data. 1937-1939 1946-1955  1986"},{"path":"/articles/agridat_data.html","id":"yates-1937-the-design-and-analysis-of-factorial-experiments","dir":"Articles","previous_headings":"Web sites","what":"Yates (1937), The Design and analysis of factorial experiments","title":"Additional sources of agricultural data","text":"","code":"9 2x2x2, 4 rep 27 2x2x2x2x2 factorial 33 2x2x2 factorial in two 4x4 Latin Squares 42 3x3x3 factorial 59 3x2x2 factorial in 3 reps.  See also page 39. 74 Split-plot agridat::yates.oats"},{"path":"/articles/agridat_data.html","id":"statistical-analysis-of-agricultural-experiments-with-r","dir":"Articles","previous_headings":"Web sites","what":"Statistical Analysis of Agricultural Experiments with R","title":"Additional sources of agricultural data","text":"rstats4ag.org (http included firewall problems). Datasets mixed models, ancova, dose response curves, competition.","code":""},{"path":"/articles/agridat_data.html","id":"syngenta-crop-challenge","dir":"Articles","previous_headings":"Web sites","what":"Syngenta Crop Challenge","title":"Additional sources of agricultural data","text":"https://www.ideaconnection.com/syngenta-crop-challenge/ Annual Kaggle-style competition sponsored Syngenta.","code":""},{"path":"/articles/agridat_data.html","id":"terra-ref","dir":"Articles","previous_headings":"Web sites","what":"Terra-Ref","title":"Additional sources of agricultural data","text":"https://terraref.org/ Sensor observations, plant phenotypes, derived traits, genetic genomic data. Beta version Nov 2018.","code":""},{"path":"/articles/agridat_data.html","id":"usda-national-agricultural-statistics-service","dir":"Articles","previous_headings":"Web sites","what":"USDA National Agricultural Statistics Service","title":"Additional sources of agricultural data","text":"https://www.nass.usda.gov https://quickstats.nass.usda.gov/ Group: Field Crops Commodity: Corn Category: Area Harvested, Yield Data Item: Corn grain Acres Harvested, Yield Bu/Ac Domain: Total Geography: State See agridat::nass.corn, nass.wheat, etc.","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"setup","dir":"Articles","previous_headings":"","what":"Setup","title":"Graphical Gems in the agridat Package","text":"exhibit agricultural data uses following packages: agridat, desplot, gge, HH, lattice, latticeExtra, mapproj, maps, reshape2.","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"potato-blight-incidence-over-space-and-time","dir":"Articles","previous_headings":"","what":"Potato blight incidence over space and time","title":"Graphical Gems in the agridat Package","text":"@lee2009random analyzed large dataset evaluate resistance potato varieties blight. data contains evaluations changing set varieties every two years, evaluated 5 blocks, repeatedly throughout growing season track progress disease. panel shows field map given date, separate row panels year. include field spatial trends model data?  1983, 20 varieties evaluated 5 blocks (shown colored numbers) throughout growing season disease resistance. Resistance scores start 9 varieties (shown panels). growing season progresses, ‘.HARDY’ variety succumbs quickly blight, ‘IWA’ succumbs steadily, ‘064.1’ resists blight near end season. view show differences blocks?","code":"## Loading required package: desplot ## Loading required package: latticeExtra ## Loading required package: lattice"},{"path":"/articles/agridat_graphical_gems.html","id":"an-informative-prior","dir":"Articles","previous_headings":"","what":"An informative prior","title":"Graphical Gems in the agridat Package","text":"@harrison2012bayesian used Bayesian approach model daidzein levels soybean samples. 18 previous publications, extracted published minimum maximum daidzein levels, number samples tested. line dotplot shows large, dark dots one published minimum maximum. small dots imputed using lognormal distribution. observed/imputed data used fit common lognormal distribution can used informative prior. common prior shown density top dotplot. think better use non-informative prior, informative prior?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"data-densities-for-a-binomial-glm","dir":"Articles","previous_headings":"","what":"Data densities for a binomial GLM","title":"Graphical Gems in the agridat Package","text":"@mead2002statistical present data germination seeds four temperatures (T1-T4) four chemical concentrations. 4*4=16 treatments, 50 seeds tested four reps. graphic, point one rep. blue line fitted curve GLM Temperature factor log concentration covariate. gray lines show central 95 percent binomial density position. display help understand logit link changing shape binomial density?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"verification-of-experiment-layout","dir":"Articles","previous_headings":"","what":"Verification of experiment layout","title":"Graphical Gems in the agridat Package","text":"@gomez1984statistical provide data experiment 3 reps, 6 genotypes, 3 levels nitrogen 2 planting dates. experiment layout putatively ‘’split strip-plot’’. verify design, desplot package used plotting design field experiments. design different ‘’split-split-plot’’ design?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"visualizing-main-effects-two-way-interactions","dir":"Articles","previous_headings":"","what":"Visualizing main effects, two-way interactions","title":"Graphical Gems in the agridat Package","text":"@heiberger2004statistical provide interesting way use lattice graphics visualize main effects (using boxplots) interactions (using interaction plots) data. Rice yield plotted versus replication, nitrogen, management type, genotype variety. Box plots show minor differences reps, increaing yield due nitrogen, high yield intensive management, large differences varieties. think interaction plots show interaction (lack parallelism)?","code":"## Loading required package: HH ## Loading required package: grid ## Loading required package: multcomp ## Loading required package: mvtnorm ## Loading required package: survival ## Loading required package: TH.data ## Loading required package: MASS ##  ## Attaching package: 'TH.data' ## The following object is masked from 'package:MASS': ##  ##     geyser ## Loading required package: gridExtra ##  ## Attaching package: 'HH' ## The following object is masked from 'package:base': ##  ##     is.R"},{"path":"/articles/agridat_graphical_gems.html","id":"d-yield-response-to-fertilizers","dir":"Articles","previous_headings":"","what":"3D yield response to fertilizers","title":"Graphical Gems in the agridat Package","text":"Note: image created manual manipulation rgl device. manual manipulation makes non-reproducible Rmd file. See example sinclair.clover data code.  @sinclair1994sulphur examined clover yields function sulfur phosphorous fertilizer factorial-treatment experiment. @dodds1996bivariate modeled yield response using Mitzerlisch-like equation allows interacting curvature two dimensions \\(x\\) \\(y\\): \\[ yield = \\alpha * \\left( 1 + \\beta *\\left(\\frac{\\sigma + \\tau*x}{x+1}\\right)^y\\right) * \\left( 1+\\delta*\\left(\\frac{\\theta + \\rho *y}{y+1}\\right)^x \\right) \\] blue dots observed data, tan surface fitted surface drawn rgl package). decide optimal fertilizer levels?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"mosaic-plot-of-potato-damage-from-harvesting","dir":"Articles","previous_headings":"","what":"Mosaic plot of potato damage from harvesting","title":"Graphical Gems in the agridat Package","text":"@keen1997analysis looked damage potatoes caused lifting rods harvest. experiment, eight types lifting rods compared. Two energy levels, six genotypes three weight classes used. combinations treatments, 20 potato tubers rated undamaged (D1, yellow) severely damaged (D4, red). Counts per treatment shown mosaic plot. style lifting rods cause least/damage potatoes?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"yield-vs-covariate-for-latticebarley","dir":"Articles","previous_headings":"","what":"Yield vs covariate for lattice::barley","title":"Graphical Gems in the agridat Package","text":"@wright2013revisiting investigated lattice::barley data. original two years data extended 10 years (original source documents), supplemented weather covariates 6 locations 10 years. panel shows scatterplot regression average location yield verses weather covariate. Horizontal strips locations, vertical strips covariates: cdd = Cooling Degree Days, hdd = Heating Degree Days, precip = Precipitation). Higher values heating imply cooler weather. plotting symbol last digit year (1927-1936) location. barley yield better cooler warmer weather?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"gge-biplot","dir":"Articles","previous_headings":"","what":"GGE biplot","title":"Graphical Gems in the agridat Package","text":"@laffont2013genotype developed variation GGE (genotype plus genotype--environment) biplot include auxiliary information block/group environments. location classified one two mega-environments (colored). mosaic plots partition variation simultaneously principal component axis source (genotype, genotype--block, residual). genotypes best mega-environment?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"nebraska-farming-income-choropleth","dir":"Articles","previous_headings":"","what":"Nebraska farming income choropleth","title":"Graphical Gems in the agridat Package","text":"Red-Blue palette RColorBrewer package divergent palette light colors near middle scale. can cause problems missing values, appear white (technically, background). order increase visibility missing values, agridat package uses Red-Gray-Blue palette, gray color dark enough clearly distinguish missing values. outlier county (Butler) northeast Nebraska limit interpration spatial patterns data?  counties different sizes, second graphic uses income rate per square mile. outlier, might smart use percentile break points, hides outlier. Instead, break points calculated using method called Fisher-Jenks. break points show outlier spatial patterns. now easy see northwest (Sandhills) Nebraska low farming income, especially crops. Counties missing data white, easily distinguished gray. farm incomes highest? ?","code":"## Loading required package: maps ## Loading required package: mapproj"},{"path":"/articles/agridat_graphical_gems.html","id":"las-rosas-yield-monitor","dir":"Articles","previous_headings":"","what":"Las Rosas yield monitor","title":"Graphical Gems in the agridat Package","text":"@anselin2004spatial @lambert2004comparison looked yield monitor data collected corn field Argentina 1999 2001, see yield affected field topography nitrogen fertilizer. figures show heatmaps yield year, also experiment design (colors reps, shades color nitrogen level, plotting character topography). year showed greater spatial variation yield?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"time-series-of-corn-yields-by-state","dir":"Articles","previous_headings":"","what":"Time series of corn yields by state","title":"Graphical Gems in the agridat Package","text":"National Agricultural Statistics Service tracks total number acres planted corn (crops) state U.S. large changes past century corn acreage selected states. states corn belt 1925? states corn belt 2000?","code":""},{"path":[]},{"path":"/articles/agridat_intro.html","id":"comments-on-the-package-purpose","dir":"Articles","previous_headings":"","what":"Comments on the package purpose","title":"Introduction to agridat","text":"project first begun early 2000s, electronic versions agricultural datasets hard find. Since , revolution availability datasets related agriculture. See vignette describes data sources. Box (1957) said, “hoped seen end obscene tribal habit practiced statisticians continually exhuming massaging dead data sets purpose life long since forgotten possibility anything useful result treatment.” Massaging dead data sets lead genetics released commercial use. value package : 1. Validating published analyses. 2. Providing data testing new analysis methods. 3. Illustrating (validating) use R packages. White van Evert (2008) present guidelines publication data. examples use asreml package since R tool fitting mixed models complex variance structures large datasets, best option modelling AR1xAR1 residual variance structures. Commercial use asreml requires license VSN. (Use search engine find latest version).","code":""},{"path":"/articles/agridat_intro.html","id":"comments-on-the-package-structure","dir":"Articles","previous_headings":"","what":"Comments on the package structure","title":"Introduction to agridat","text":"Many datasets appear electronic form first time. tremendous amount effort given curating process identifying datasets, extracting data source materials, checking data values, documenting data. effect, make data somewhat ‘computable’ (Wolfram 2017). original sources data use different words refer genotypes including accession, breed, cultivar, genotype, hybrid, line, progeny, stock, type, variety. consistency, datasets mostly use gen (genotype). Also consistency, row col usually used field coordinates. dataframes, block, rep, similar terms almost always coded like B1, B2, B3 instead 1, 2, 3. causes R treat data factor instead numeric covariate (good thing). Almost data presented ‘tidy’ dataframes observations rows variables columns. Although using data() necessary access data files, example sections include use data() devtools::run_examples() needs .","code":""},{"path":"/articles/agridat_intro.html","id":"references","dir":"Articles","previous_headings":"","what":"References","title":"Introduction to agridat","text":"G. E. P. Box (1957). Integration Techniques Process Development, Transactions American Society Quality Control. J. White Frits van Evert. (2008). Publishing Agronomic Data. Agronomy Journal, 100, 1396-1400. https://doi.org/10.2134/agronj2008.0080F Stephen Wolfram (2017). Launching Wolfram Data Repository: Data Publishing Really Works. https://writings.stephenwolfram.com/2017/04/launching--wolfram-data-repository-data-publishing--really-works/","code":""},{"path":[]},{"path":"/articles/agridat_uniformity_data.html","id":"archive-org---2023-04-07","dir":"Articles","previous_headings":"Searches","what":"archive.org - 2023.04.07","title":"Notes on uniformity data","text":"“uniformity trial” “optimum size plots” “Optimum Size Shape Plots”","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"google","dir":"Articles","previous_headings":"Searches","what":"Google","title":"Notes on uniformity data","text":"“uniformity trial data” “optimum size plots” “Optimum Size Shape Plots” “plot shape size” “field plot technique”","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"hathitrust","dir":"Articles","previous_headings":"Searches","what":"HathiTrust","title":"Notes on uniformity data","text":"“blank experiment” “plot technic” “plot technique” “uniformity trial”","code":""},{"path":[]},{"path":"/articles/agridat_uniformity_data.html","id":"u--nebr","dir":"Articles","previous_headings":"ToDo","what":"U. Nebr","title":"Notes on uniformity data","text":"Love, “Experimental methods agricultural research”. storage.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"iowa-state","dir":"Articles","previous_headings":"ToDo","what":"Iowa State","title":"Notes on uniformity data","text":"Parks Library Indian J Ag Sciences, 1931-1968, S1 In2 Storage. Tropical Agriculture. Empire Journal Experimental Agriculture","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"paper-not-found","dir":"Articles","previous_headings":"","what":"Paper not found","title":"Notes on uniformity data","text":"Abraham, T.P. & Vachhani, M.V. 1964. Investigations field experimental techniques rice crop. Indian J. Agric. Sci. 34, 152-165. Agarwal, K.N. (1973). Uniformity trial Apple. Indian Journal horticulture. 30:525-528. https://www.indianjournals.com/ijor.aspx?target=ijor:ijh&volume=30&issue=3and4&article=013 Paywall. available. Agarwal, K.N. & Deshpande, M.R. 1967. Size shape plots blocks field experiments dibbled paddy. Indian J. Agric. Sci., 37, 445-455. Agarwal, K.N., Bavappa, K.V.. Khosla, R.K. (1968). study size shape plots blocks optimum number experimental periods arecanut. Indian Journal Agricultural Sciences, 38, 444-460. found. Journal: http://epubs.icar.org./ejournal/index.php/IJAgS Agnihotri, V. Asrawal, M. C. 1996. Size shape plots blocks field experiments Eucalyptus Shivalik Hills. Indian Journal Forestry, 19, 74-78. found. Agnihotri, Y.; AGARWAL, M. C.. Uniformity Trials Determination Optimum Size Shape Plots/Blocks Experimentation Acacia catechu. Indian Forester, [S.l.], p. 711-716, aug. 1995. https://doi:10.36808//1995/v121i8/7202. found. Ali, ..; Ammar, S.E.M.M. Optimum plot size shape trials maize. Annals Agricultural Science, Moshtohor 36(3): 1361-1372. https://eurekamag.com/research/012/808/012808132.php found. Bhatnagar, S.; Srivastava, O.P. Lather, B. P. S. Optimum size shape plot mustard. Annals Agricultural Research. found. Bischoff, K.P.; Gravois, K..; Schexnayder, H.P.J.; Hawkins, G.L. (2001). effect harvest method plot size estimation sugarcane yield. Journal American Society Sugar Cane Technologists 21: 51-60. Bonazzi, . (1933). Errors field experimentation ratoon cane. Asoc. de Tec. Azucareros Cuba, Proc 7: 32-40. Looked hard, find. Original probably Spanish. Full publisher: Asociación de Técnicos Azucareros de Cuba. Calzada Benza, J. 1957. El error experimental y la precision en los experimentos. Lima Peru , Estac. Expt. Agr. de La Molina , Bol. 67 , 33 pp . found. Chapas, L.C. 1961. Plot size reduction variability oil palm experiments. Emp Jour. Exp. Agric., 29, 212-224. Chaudhary, G.K.; Prajapati, B.H.; Patel, J.K.; Prajapti, R..; Loria, J.M. (2011) Optimum size shape plot field experiments wheat North Gujarat Condition. J.Ind.Soci.Agril.S Chessmore, R. . Thesis :Entitled Evaluation Field Plot Techniques Testing Forage Grasses. Univ. Nebr. 1952. https://digitalcommons.unl.edu/dissertations/AAIDP13618/ Paywall. CRI (1985). Report Coconut Research Institute 1985. (Ed. R Mahindapala), Lunuwila, Sri Lanka. Currence, T.M.; Krantz, F.. (1936). relation plot size shape potato yield variations. Amer. Potato J 13, 310-13. https://doi.org/10.1007/bf02881080 Paywall: https://eurekamag.com/research/013/580/013580084.php Dutta, S. K., HEATH, E. D. (1960) Size, shape, number plots field experiments tea. found. Fairchild, J. . (1928). Comparative Value Systems Replications Size Shape Plots Oats Nursery Trials. Thesis, Okla. Agr. Mech. Coll. Stillwater, Okla. 1928. found. Faqir Mohammad, Tariq Mahmood Bajwa; Sohail Ahmad. (2001). Size Shape Plots Wheat Yield Trials Field Experiments. International Journal Agriculture & Biology, 4, 397-402. Fisher, Alan Charles (1973). Technique Designing Field Experiments Using Uniformity Trial Data. North Carolina State University Raleigh. https://catalog.lib.ncsu.edu/catalog/NCSU508428 electronic version. French, M. H. (1956). Minimum size experimental plots assessment pasture yield. East African Agr. Forestry Res. Organ. Rpt. 1956. French, M. H. Errores asociados con el uso de pequeñas parcelas de prueba en las evaluaciones de rendimiento de pastos. Agron. Trop. 10, 71-76. Galal, H.E.; E.G.ttouh Abou. (1971). Estimation optimum plot size shape Egyptian cotton yield trials. Alexandria Journal Agricultural Research 19(2): 233-238 Gopini, D.D.; Kabaria, M.M. Vaishnani, N.L. (1970). Size shape plots field experiments groundnut. Indian Journal agricultural science, 40, 1004-1010. found. Gosh, G.L.M. & Sanyal, .T. 1945. Techniques field experiments jute. Agri. Res. Memoire 4, Indian Central Jute Comm. Gupta, J.P. Raghavarao, D. (1969). uniformity trial onions. Journal Indian Horticulture, 7, 184-187. Gupta, J.P. Raghavarao, D. (1971). Optimum Size Plots Experiments Weight Onion Bulbs. Indian Journal Horticulture, 28, 234-236. Gupta, S. C.; Kauchik, L. S.; Yadava T. P. (1991). study size shape experimental plots groundnut. Indian Journal Agricultural Research, 25, 161-166. https://krishikosh.egranth.ac./handle/1/2040054 Restricted access. Hamdi, .; Shokr, E. M. H.; Sedhom, S. .; Hassanein, S. . . (2003). Estimation optimum plot size shape lentil yield trials. Egyptian Journal Agricultural Research, 81, 1723-1734. Handa, D.P., Sreenath, P.R., Sastry, J.., Rajpal, S.K. Shukla, N.P. (1982). Size shape plots blocks experiments oats grown fodder. Indian Journal agricultural sciences, 52, 466-471. found. Hoshyar Chand Sharma (1991). observations estimation plot size shape, Bartlett’s Rate Index yield loss adjustments. Journal Indian potato Association, 18, 9-18. Jayaram, K.; Venkataramu, M.N.; Sunderrajan, N.; Seetharam, . (1981) Optimum size shape plots blocks field experiments sunflower (Helianthus annuus Linn.) Mysore Journal Agricultural Sciences 15(4): 512-518 https://eurekamag.com/research/001/422/001422535.php Jolly, . L. (1942). Uniformity trials estate cacao fields Grenada, B.W.. Tropical Agriculture, 19, 167-174. https://journals.sta.uwi.edu/ta/index.asp?action=viewIssue&issueId=532 access. Kaushik, L.S.; Kapoor, K.; Hasija, R.C.; Tyagi, C.S. (1989). uniformity trial moong (Vigna radiata (L) Wilczek) Indian Journal Agricultural Research 23(3): 138-142 https://krishikosh.egranth.ac./handle/1/2040100 Restricted access. Khan, Mujahid. 2015. Uniformity trial raya (Brassica juncea). M.Sc. Dissertation. https://krishikosh.egranth.ac./handle/1/80362 Seems like paper unlocked , download fails. Khurana, ., Rai, L. Gupta, S.N. (1992). uniformity trial soybean (Glycine max. L.). Haryana agricultural University Journal research, 22, 225-228. Krantz, F. . (1922). Preliminary Study Field Plot Technique Potato Yield Test. Rept, Potato Assoc. . 42-44. found. Krantz, F. . (1923) studies field plot technique potato yield tests. Proc. Tenth Ann. Meeting Pot. Assn Amer, 174-179. found. Kristiensen, K. Ersboll, .K. 1995. use Geostatistical methods variety trials, varieties unreplicated. Biuletyn Oceny Odmain (Cultivar Testing Bulletin), 26-27, 113-122. found. Kumar, Manoj Hasija (2002). study size shape plots wheat. Annals Agriculture Bio-research 7 (1), 89-93 Lajpat Rai, Gupta, S.N. Rai, L. (1994). Optimum size shape plots field experiments soyabean (Glycine max. L.). Annals biology Ludhiana, 10, 261-263. Lakhera, M.L.; Singh, V.P.; Sundar, R. M. Patel, N.M. (1995). Optimum size shape plot field experiments gram. Gujarat Agricultural University Research Journal, 21, 142-148. https://eurekamag.com/research/002/912/002912452.php Paywall. Lakshmi, K. R. Gadewar, .U. (1989). Optimum plot size field trials yams. J. Root Crops, 15, 25-27. https://eurekamag.com/research/001/901/001901900.php Paywall. Lopes, S. J. et al. (2005). Experimental plot size grain sorghum different plant densities. June 2005; Pesquisa Agropecuária Brasileira 40(6):525-530. Lu, ChunTang et al (1995). Estimation optimum plot size replicates number using data rice uniformity trials. J. Agricultural Research China, 44, 229-241. Love, Harry H. (1943). Experimental Methods Agricultural Research. Agr. Exp. Sta. University Puerto Rico. Rio Piedras Puerto Rico. data (according Mendez). Might data love.cotton.uniformity TODO Physical copy Univ Nebr. https://unl.primo.exlibrisgroup.com/discovery/fulldisplay?docid=alma991020452609706387&context=L&vid=01UON_LINC:UNL&lang=en&search_scope=MyInst_and_CI&adaptor=Local%20Search%20Engine&tab=Everything&query=,contains,Experimental%20Methods%20in%20Agricultural%20Research&mode=basic Mahalanobis, P C; Chakravorti, S C; Banerjee, E R. 1934. Influence shape size plots accuracy field experiments rice, Chinsurah, Bengal Procedings Indian Science Congress (Bombay) Sec Agricultural Statistics 21, 71. http://library.isical.ac.:8080/xmlui/handle/10263/1793 found; pdf contains abstract. Mangat, N. S. (1984). Optimum size shape plot block cotton field experiments. Journal Research-Punjab Agricultural University (India). McHatton, T.H. 1947. comparison plot size peach experiment Proceedings American Society Hort Science 49: 18-20 https://eurekamag.com/research/013/864/013864510.php access. found. Medina Urrutia, V. M. S. Becerra Rodriguez,J. L. Macias Gonzalez (1980). Optimum size shape experimental plots research studies Mexican lemon (Citrus aurantifolia). Agricultura tec. Mex. 1980 Vol.6 .2 pp.93-105 ref.11 Menon, T.C.M. Tyagi, B.N. (1971). Optimum size shape plots experiments mandarin orange. Indian Journal agricultural science, 41, 857-861. https://eurekamag.com/research/000/153/000153659.php available. Murray, D.B. 1950. uniformity trial swamp rice. Tropical Agriculture https://journals.sta.uwi.edu/ta/index.asp?action=viewIssue&issueId=406 access. Pandya, H.R.; Upadhyay, S.M>; Parmar, B.. (2006). Analysis uniformity trial cotton. J. Ind. Soc. Agric. Statist, 60, 175-236. Peiris, W. V. D. Salgado, M. L. M. (1937). Experimental error field experiments coconut. Tropical Agriculture, Trinidad, 89:75-85 Pimentel Gomes, F. (1987). Novos Aspectos Tamanho Otimo das Parcelas em Experimentos Com Plantas Arbdreas (New Contribution Problem Plot Size Experiments Trees). Pesq. agropec. bras., Brasilia (press). Rambabu; Aarwal, M.C.; Somaraj, P. Chinnamani, S. (1980). Size shape plots blocks field trials natural grasslands Nilgiris hills. Indian Journal agricultural science, 50, 598-602. https://eurekamag.com/research/006/424/006424390.php found Sarma, Y.R.B.; Rao, .V.; Srinivasan, T.E (1977). Note size shape plots blocks rice field experiments. Indian Journal Agricultural Sciences 47(12): 639-641 https://eurekamag.com/research/000/707/000707085.php Paywall. Schuster, W; Bretschneider-Hermann, N; Zschoche, K.-H. (1984). Untersuchungen zur Feldversuchstechnik von Winterraps. Versuche zur Teilstückgrösse, Teilstückform und zur Zahl der Wiederholungen [English: Investigations experimental designs winterrape experiments plot size, plot-shape numbers replications]. Zeitschrift für Acker- und Pflanzenbau. [Eng: Journal agronomy crop science]. 1984, Vol 153, Num 6, pp 446-459. Seif, R. D., (1957). Optimum Field Plot Size Shape Lima Bean Yields. Unpublished Ph.D. thesis. Ithaca, New York. Cornell University. https://newcatalog.library.cornell.edu/catalog/1151920 found. Physical copy Cornell University. TODO Sen, .R. (1963). techniques experimentation cloval tea based uniformity trial. Emp. J. Exp. Agri., 31, 296-310. Sethi, .S. (1985). modified approach determine optimum size shape plots field experiments maize grown terraced land. Indian Journal Agricultural Sciences, 36, 95-99. Sethi, .S.; Kapur, M.L. (1995). Optimum size shape experimental plots sugarcane grown Punjab conditions Journal Research, Punjab Agricultural University 32(4): 418-425 https://eurekamag.com/research/002/912/002912450.php Paywall Shamasundaran, K.S., Singh, K.P. Mandhar, S.C. (2002). Standardization optimum size shape plots gerbera naturally ventilated greenhouse condition. Indian Journal Horticulture, 59, 431-434. http://www.indianjournals.com/ijor.aspx?target=ijor:ijh&volume=59&issue=4&article=019 Paywall. Shu, S.C.; Park, S.H.; Yu, .S.; Joo, Y.J.; Hong, Y.K. (1970). Studies optimum plot size, plot shape number replications field experiments wheat. Research Reports Office Rural Development, S. Korea, Crops, 13: 95-99 https://eurekamag.com/research/014/696/014696398.php Singh, R.P. (1989). Optimum plot size yield trials chillies Indian Journal Horticulture 46(3): 404-406 https://eurekamag.com/research/001/901/001901901.php Sreenath, P.R. (1973). Size shape plots blocks field trials sorghum. Indian Journal Agricultural Sciences, 43, 110-112. found. Srinivasan, C.S.; George, M.V.; Subbalakshmi, V.; Amarnath, C.H. (1994). Optimum plot size field trials Coffea arabica cv. Cauvery (Catimor) Journal Coffee Research 24(2): 87-96. Srinivasan, V.R.; Biswas, S.R.; Ramachander, P.R.; Reddy, B.M.C.; Prakash, G.S.; Dass, H.C. (1982). Estimation optimum size shape plots blocks pineapple yield trials. Singapore Journal Primary Industries 10(2): 107-115. https://eurekamag.com/research/001/074/001074791.php Paywall. Tageldin, Mohamed hany Ahmed (1989). Effect plot size, block size, block shape performance ryegrass-alfalfa mixtures orchardgrass. Thesis (Ph.D)–University Wisconsin–Madison, 1989. found. Physical copy Univ Wisconsin Madison. TODO Upadhyay, S. M., Prajapati, B.H., Raja, K.R.V. Darji, V.B. (1994). Optimum plot size summer paddy Navsari zone Gujarat. Gujarat Agricultural University Research Journal, 19, 92-97. found. Vaidyanathan, M. (1934). method covariance applicable utilization previous crop records judging improved precision experiments. Ind. J. Agric. Sci., 4, 327-42. found. data 24 plots. TODO Weber, Charles Robert. 1941. Statistical analysis uniformity trial soybeans reference plot size shape comparison efficiency various experimental designs. Univ Illinois. Thesis. https://-share-uiu.primo.exlibrisgroup.com/permalink/01CARLI_UIU/gpjosq/alma99265257912205899 found. Physical copy Univ Illinois. TODO Wray, William Dean (1941). Applications Uniformity Trials. PhD, Cornell University. https://newcatalog.library.cornell.edu/catalog/302914 found. Physical copy Cornell. Yates, F., Vernon, . J. Nelson, S. W. (1964). example analysis uniformity trial data electronic computer. Empire Journal Experimental Agriculture. 32 (125). https://eurekamag.com/research/014/342/014342010.php found. Physical copy UNL Storage. TODO Yun, K.H.; Park, S.H.; Lee, Y.M. (1968). estimation optimum plot size, shape number replications yield performance trials rice. Res. Rep. Office rur. Dev, Suwon, 11: 1, 53-7. Bibl. 21 https://eurekamag.com/research/014/341/014341511.php Zuhlke, Thomas Albert (1968). Uniformity Trial Pisum Sativum Estimating Optimum Plot Size Shape, Replication Number, Relative Efficiency Lattice Designs. https://search.library.wisc.edu/catalog/999876004102121 found. Physical copy Univ Wisconsin Madison. TODO","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"reviewed-papers","dir":"Articles","previous_headings":"","what":"Reviewed papers","title":"Notes on uniformity data","text":"Afonja, Biyi (1968). Analysis Uniformity Trial Cassava. Experimental Agriculture, 4(2), 135-141. https://doi.org/:10.1017/S0014479700022468 Reviewed. data. Aftab--Islam, M. Ashfaq, M. Idrees Ahmed. (1984) Sizes shapes plots field plot experiments wheat uniformity trial data. Pakistan Journal Agricultural Sciences, Volume 21, Issue 3,4. https://www.tehqeeqat.com/english/articleDetails/36510 Reviewed. data. Ahring, R. M., Morrison, R. D., & Wilhite, M. L. (1959). Uniformity Trials Germination Switchgrass Seed 1. Agronomy Journal, 51(12), 734-737. Aly, .E.; Salem, S..; Shalaan, M.. (1978). Optimum plot size shape relative efficiency different designs yield trials rice Oryza sativa L. Alexandria Journal Agricultural Research 26(2): 317-326 https://eurekamag.com/research/000/711/000711675.php found. Ansari, M. . ., G. K. Sant (1943). Study Soil Heterogeneity Relation Size Shape Plots Wheat Field Raya (Muhra District). Ind. J. Agr. Sci, 13, 652-658. https://archive.org/details/.ernet.dli.2015.271748 agridat::ansari.wheat.uniformity Arny, . C. H. K. Hayes. (1918) Experiments field technic plot tests. J. Agric. Res., 15, 251-262. Reviewed. data. Assis, Janilson & Sousa, Roberto & Linhares, Paulo & Cardoso, Eudes & Rodrigues, Walter & Pereira, Joaquim & Sousa, Robson & Medeiros, Aline & Silva, Neurivan & Andrade, Anderson & Gomes, Geovanna & Santos, Mateus & Alves, Lunara. (2020). Optimum plot size field experiments sesame. Australian Journal Crop Science. 1957-1960. https://doi.org/10.21475/ajcs.20.14.12.2828. Reviewed. data. Awake, Girma Taye; Amsal Tarekegne; D. G. Tanner. (2000). “Estimation optimum plot dimensions replication number wheat experimentation Ethiopia.” African crop science journal 8.1 (2000): 11-23. https://repository.cimmyt.org/handle/10883/2321 Reviewed. data. Bailey, M. ., Trought, T. (1926). account experiments carried determine experimental error field trials cotton Egypt. Egypt Ministry Agriculture, Technical Science Service Bulletin 63, Min. Agriculture Egypt Technical Science Bulletin 63. https://www.google.com/books/edition/Bulletin/xBQlAQAAIAAJ?pg=PA46-IA205 agridat::bailey.cotton.uniformity Baker, G. . Huberty, MR Veihmeyer, FJ. (1952) uniformity trial unirrigated barley ten years’ duration. Agronomy Journal, 44, 267-270. https://doi.org/10.2134/agronj1952.00021962004400050011x agridat::baker.barley.uniformity Baker, G. .; R. E. Baker (1953). Strawberry Uniformity Yield Trials. Biometrics, 9, 412-421. https://doi.org/10.2307/3001713 agridat::baker.strawberry.uniformity Baker, G. . E. B. Roessler (1957). Implications uniformity trial small plots wheat. Hilgardia, 27, 183-188. https://hilgardia.ucanr.edu/Abstract/?=hilg.v27n05p183 agridat::baker.wheat.uniformity Bakke, Olaf Andreas. (1988). Tamanho e forma ótimos de parcelas em delineamentos experimentais. Dissertation. Escola Superior de Agricultura Luiz de Queiroz. https://teses.usp.br/teses/disponiveis/11/11134/tde-20181127-160559/pt-br.php Used Gomez rice uniformity. Bancroft, T. . et a1., (1948). Size Shape Plots Distribution Plot Yield Field Experiments Peanuts. Alabama Agricultural Experiment Station Progress Report, sec. 39. Table 4, page 6. http://hdl.handle.net/11200/1345 agridat::bancroft.peanut.uniformity Barber, Clarence W. (1914). Note Influence Shape Size Plot Tests Varieties Grain. Maine Agr. Expt. Sta. Bul. 226:76-84. 1914. https://www.google.com/books/edition/Annual_Report/QF84AQAAMAAJ Reviewed. data. Batchelor, L. D.; H. S. Reed. (1918). Relation variability yields fruit trees accuracy field trials. J. Agric. Res, 12, 245–283. https://books.google.com/books?id=Lil6AAAAMAAJ&lr&pg=PA245 agridat::batchelor.uniformity Bayoumi, Tarek Youssef; S El-Demardash. Effect water deficit soil variability, plot size, shape number replications chickpea. https://www.academia.edu/21549629/Effect_of_Water_Deficit_on_Soil_Variability_Plot_size_Shape_and_Number_of_Replications_for_Chickpea Reviewed. data. Beard, J.S. (1954). Investigations experimental plot technique black wattle. Empire Forestry Review, 33, 158-171. https://www.jstor.org/stable/42602653 Reviewed. data. Beattie, J. H. Victor R. Boswell E. T. Batten. (1936). Pot plant variation Virginia Peanuts. Proceedings American Society Horticultural Science, 34. https://archive.org/details/dli.ernet.26569/page/585/mode/2up?q=beattie Reviewed. data. Bhatt, Hitesh M. (1998). Plot technique Potato. AAU, Anand. https://krishikosh.egranth.ac./handle/1/5810043200 Reviewed. data. Bose, R. D. (1935). soil heterogeneity trials Pusa size shape experimental plots. Ind. J. Agric. Sci., 5, 579-608. Table 1 (p. 585), Table 4 (p. 589), Table 5 (p. 590). https://archive.org/details/.ernet.dli.2015.271739 agridat::bose.multi.uniformity Bose, S. S.; Ganguli, P. M., Mahalanobis, P. C. frequency distribution plot yields optimum size plots uniformity trial rice Assam. Indian J. Agric. Sci., 1936, 6 part 5, pp. 1107-22. https://archive.org/details/.ernet.dli.2015.271737/page/n1263/mode Reviewed. data. Bose, S. S.; Khanna, K L; Mahalanobis, P C Note optimum shape size plots sugarcane experiments Bihar. India Journal Agricultural Science 9, 807-816 https://hdl.handle.net/10263/1896 http://library.isical.ac.:8080/jspui/handle/10263/1896 Reviewed. data. Boyhan, George E.; David B. Langston; Albert C. Purvis; C. Randell Hill. (2003). Research determine suitable plot size number replications field trials sugarbeet. J. Amer. Soc. Hort. Sci., 128, 409-424. Reviewed. data. Compared Hatheway’s method Cochran Cox’s method, latter gave smaller number plots. Boyhan, George E., David B. Langston, Albert C. Purvis, C. Randell Hill. (2003). Optimum plot size number replications short-day onions yield, seedstem formation, number doubles, incidence foliar diseases. J. Amer. Soc. Hort. Sci., 128, 409-424. https://doi.org/10.21273/JASHS.128.3.0409 Reviewed. data. Boyhan, George E. (2013). Optimum Plot Size Number Replications Determining Watermelon Yield, Fruit Size, Fruit Firmness, Soluble Solids. HortScience, 48, 1200-1208. https://doi.org/10.21273/HORTSCI.48.9.1200 Reviewed. data. Bradley, P. L. (1941). study variation productivity number fixed plots field 2. Dissertation: University West Indies. Appendix 1a, 1b, 1c, 1d. https://uwispace.sta.uwi.edu/dspace/handle/2139/41259 agridat::bardley.multi.uniformity Brewer, . C. R. Mead (1986). Continuous Second Order Models Spatial Variation Application Efficiency Field Crop Experiments. Journal Royal Statistical Society. Series (General), 149(4), 314–348. See page 325. http://doi.org/10.2307/2981720 Reviewed. data. Used StVincent cotton data found Rothamsted. agridat::hutchinson.cotton.uniformity Brim, C. . D. D. Mason. (1959). Estimates Optimum Plot Size soybean Yield Trials. Agron. Journal, 51: pp. 331-335. https://doi.org/10.2134/agronj1959.00021962005100060008x Reviewed. data. Brown, .R. Morris, H.D. (1967), Estimation Optimum Plot Size Shape Grain Sorghum Yield Trials. Agron. J., 59: 576-577. https://doi.org/10.2134/agronj1967.00021962005900060026x Reviewed. data. Chaves, L. J.; J. B. Miranda Filho (1992). Plot size progeny selection maize (Zea maysL.). Theoretical Applied Genetics, 84, 963–970. https://doi.org/10.1007/bf00227411 Reviewed. data. Cheesman, E. E., Pound, F. J. Uniformity trials Cacao. Trop. Agric., 9, 277-88. Reviweed. data. Christidis, Basil G (1931). importance shape plots field experimentation. Journal Agricultural Science, 21, 14-37. Table VI, p. 28. https://doi.org/10.1017/S0021859600007942 agridat::christidis.wheat.uniformity Christidis, B. G. (1939). Variability Plots Various Shapes Affected Plot Orientation. Empire Journal Experimental Agriculture 7: 330-342. Table 1. agridat::christidis.cotton.uniformity G. Peter Y. Clarke Katia T. Steanova. (2011). Optimal design early-generation plant-breeding trials unreplicated partially replicated test lines. Aust. N. Z. Jour. Stat., 53, 461-480. Reviewed. data. Collison, R. C. J. D. Harlan. Technical bulletin 194. relationships soil properties performance Baldwin Greening Apple Trees. New York State Agricultural Experiment Station https://babel.hathitrust.org/cgi/pt?id=uiug.30112019767000 Reviewed. data trees. Collison, R. C. J. D. Harlan. Technical bulletin 126. Annual variation apple yields - possible cause. New York State Agricultural Experiment Station https://babel.hathitrust.org/cgi/pt?id=uiug.30112019766267 Reviewed. data. Conners, Helen Elizabeth (1951). Field plot techniques sweet potatoes obtained uniformity trial data. Master’s Thesis, Iowa State University. digital copy available. Reviewed. data. Coombs, G. E. J. Grantham (1916). Field Experiments Interpretation results. Agriculture Bulletin Federated Malay States, 7. https://www.google.com/books/edition/The_Agricultural_Bulletin_of_the_Federat/M2E4AQAAMAAJ agridat::coombs.rice.uniformity Cordeiro, Célia Maria Torres, João Eustáquio Cabral de Miranda, Jarbas Campos. “Tamanho de parcelas e número de repetições em experimento de batatas.” Pesquisa Agropecuária Brasileira 17.9 (1982): 1341-1348. Reviewed. data. Crews, Julian W., Jones, G.L. Mason, D.D. (1963). Field Plot Technique Studies Flue-Cured Tobacco. . Optimum Plot Size Shape. Agron. J., 55: 197-199. https://doi.org/10.2134/agronj1963.00021962005500020033x Reviewed. data. Damor, Bhavika. (2019). Comparison uniformity trial data experimental data plot technique. Department Agricultural Statistics, B. . College Agriculture, Anand Agricultural University. https://krishikosh.egranth.ac./handle/1/5810169594 Reviewed. used. data 3 uniformity trials, data just looks strange. Appendix , 500 numbers 9 “4” hundredths place. expect see 50. data collected non-kg weights converted kg. Appendix III, plots along left edge measured 3 decimals (0.993, 0.631), field measured 2 decimals. Weird. da Silva, Enedino Correa. (1974). Estudo tamanho e forma de parcelas para experimentos de soja (Plot size shape soybean yield trials). Pesquisa Agropecuaria Brasileira, Serie Agronomia, 9, 49-59. Table 3, page 52-53. agridat::dasilva.soybean.uniformity da Silva, Willerson Custódio; Mário Puiatti; Paulo Roberto Cecon; Leandro Roberto de Macedo; Tocio Sediyama. (2019) Estimation optimum experimental plot size taro culture. Ciência Rural, Santa Maria, v.49 https://doi.org/10.1590/0103-8478cr20180440 Reviewed. data. da Silva, Luiz Fernando de Oliveira; Katia Alves Campos; Augusto Ramalho de Morais; Franciane Diniz Cogo; Carolina Ruiz Zambon. Optimal plot size experiments radish. Revista Ceres 59(5):624-629 https://doi.org/10.1590/S0034-737X2012000500007 Reviewed. data. de Assis, J. P., de Sousa, R. P., Rodrigues, W. M., Linhares, P. C. F., Cardoso, E. de ., Soares Pereira, M. F., Araújo Paula, J. . de, & Oliveira, . da M. (2019). Optimum Size Shape Experimental Units Cassava Cropping. Journal Experimental Agriculture International, 31(6), 1–10. https://doi.org/10.9734/jeai/2019/v31i630090 Reviewed. data. de Sousa, Roberto Pequeno Assis, Janilson Pinheiro de Rodrigues, Walter Martins Linhares, Paulo César Ferreira Cardoso, Eudes de Almeida Pereira, Maria Francisca Soares Paula, José Aluisio de Araújo (2018). Optimum Plot Size Experimental Cassava Production. Journal Agricultural Science, 10, 231-237. Reviewed. data. https://doi.org/10.5539/jas.v10n10p231 de Sousa, Roberto Pequeno; Paulo Sérgio Lima e Silva; Janilson Pinheiro de Assis; Paulo Igor Barbosa e Silva; Júlio César DoVale. 2015. Optimum plot size experiments sunflower. Revista Ciencia Agronomica, 46, 170-175. https://doi.org/10.1590/S1806-66902015000100020 Reviewed. data. Precision increased plot sizes 5 m^2. Davies, J. Griffiths (1931). Experimental Error Yield Small Plots Natural Pasture. Council Scientific Industrial Research (Aust.) Bulletin 48. Table 1. agridat::davies.pasture.uniformity Day, James Westbay (1916). relation size, shape, number replications plats probable error field experimentation. Dissertation, University Missouri. Table 1, page 22. https://hdl.handle.net/10355/56391 agridat::day.wheat.uniformity Dorph-Petersen, K. 1949. Parcelfordeling markforsog. Tidsskrift Planteavl. 52, 111-175 https://dca.au.dk/publikationer/historiske/planteavl/ Reviewed. data. see anything looked like field 12x43 plots. Mentioned Kristensen (2003). Draper, Arlen D. (1959). Optimum plot size shape safflower yield tests. Dissertation. University Arizona. https://hdl.handle.net/10150/319371 agridat::draper.safflower.uniformity Eden, T. E. J. Maskell. (1928). influence soil heterogeneity growth yield successive crops. Jour Agricultural Science, 18, 163-185. https://archive.org/stream/.ernet.dli.2015.25895/2015.25895.Journal--Agricultural-Science-Vol-xviii-1928#page/n175 agridat::sawyer.multi.uniformity Eden, T. (1931). Studies yield tea. 1. experimental errors field experiments tea. Agricultural Science, 21, 547-573. https://doi.org/10.1017/S0021859600088511 agridat::eden.tea.uniformity Elliott, F. C., Darroch, J.G. Wang, H.L. (1952). Uniformity trials spring wheat. Agronomy Journal, 44, 524-528. https://doi.org/10.2134/agronj1952.00021962004400100005x Reviewed. data. England, F. (1968). Non-sward densities assessment yield Italian ryegrass: II. Convenient plot block size shape. Journal Agricultural Science, 70(02), 105. https://doi.org/10.1017/s0021859600010923 Reviewed. data. Ersboll, Annette. Spatial Temporal Variations Applications Agriculture. “Models action”, Proceedings seminar series 1995/1996. Reviewed. data. Facco, Giovani; Cargnelutti Filho Alberto; Mendonça Alves Bruna; et. al. (2017). Basic experimental unit plot sizes method maximum curvature coefficient variation sunn hemp. African journal agricultural research 12(6):415-423 https://doi.org/10.5897/AJAR2016.11814 Reviewed. data. Faria, Glaucia Amorim Lopes, Beatriz Garcia Peixoto, Ana Patrícia Bastos Ferreira, Antonio Flávio Arruda Maltoni, Kátia Luciene Pigari, Lucas Bernardo (2020). Experimental plot size passion fruit. Revista Brasileira de Fruticultura, 42. http://dx.doi.org/10.1590/0100-29452020125. Reviewed. data. Filho, Alberto; Cargnelutti; Marcos Toebe; Cláudia Burin; André Luis Fick; Gabriele Casarotto. (2011). Plot sizes uniformity assays turnip. Ciência Rural 41.9 (2011): 1517-1525. https://doi.org/10.1590/S0103-84782011005000119 Reviewed. data. Filho, Alberto Cargnelutti; Marcos Vinícius Loregian, Gabriel Elias Dumke, Felipe Manfio Somavilla, Samanta Luiza da Costa, Lucas Fillipin Osmari, Bruno Fillipin Osmari (2021). Optimal plot size buckwheat. https://doi.org/10.5433/1679-0359.2021v42n2p501 https://www.uel.br/revistas/uel/index.php/semagrarias/article/view/39448/29330 Reviewed. data Filho, Alberto Cargnelutti, Ismael Mario Marcio Neu, Valeria Escaio Bubans, Felipe Manfio Somafilla, Bruno Fillipin Osmari. (2022). Method estimating optimal plot size Black Oat, Common Vetch, Forage Turnip intercropping. http://dx.doi.org/10.1590/1983-21252022v35n425rc Reviewed. data. Fleming, .., Roger, T.H. Bancroft, T.. (1957). Field plot technique hybrid corn Alabama conditions. Agronomy Journal, 49, 1-4. https://doi.org/10.2134/agronj1957.00021962004900010001x Reviwed. data. Forster, Howard Carlyle Vasey, . J. (1928). Experimental error field trials Australia. Proceedings Royal Society Victoria. New series, 40, 70–80. https://www.biodiversitylibrary.org/page/54367272 Reviewed. agridat::forster.wheat.uniformity Frey, K.J. Baten, W.D. (1953). Optimum Plot Size Oat Yield Tests. Agron. J., 45: 502-504. https://doi.org/10.2134/agronj1953.00021962004500100012x Reviewed. data. Garber, RJ McIlvaine, TC Hoover, MM. (1926). study soil heterogeneity experiment plots. Jour Agr Res, 33, 255-268. Tables 3, 5. https://naldc.nal.usda.gov/download/IND43967148/PDF agridat::garber.multi.uniformity Garber, R. J. T. C. McIlvaine M. M. Hoover (1931). Method Laying Experimental Plats. Journal American Society Agronomy, 23, 286-298. https://archive.org/details/.ernet.dli.2015.229753/page/n299 agridat::garber.multi.uniformity Gardenhire, James H. (1949). Field Plot Technique Plant Characteristic Studies Varieties Castor Plants. Thesis, Okla. Agr Mech. Coll., Stillwater, Okla. https://shareok.org/handle/11244/43284 Reviewed. data. Garner, F. H.; Grantham, J.; Sanders, H. G. (1934). value covariance analysing field experimental data. Journal Agricultural Science, 24(2), 250–. https://doi:10.1017/s0021859600006626 George, M. V.; M. Sannamarappa (1984). Uniformity trial: Size, Shape, Direction Experimental Plots Turmeric. Proceedings Sixth Symposium Plantation Crops, p. 429. https://archive.org/details/.ernet.dli.2015.502074/page/n453 Reviewed. data. Gomez, K.. R. C. Alicbusan (1969). Estimation optimum plot size rice uniformity data. Philippine Agriculturist. 52, 586-601 https://www.google.com/books/edition/The_Philippine_Agriculturist/2irOAAAAMAAJ found, probably data used Gomez & Gomez (1984). Gomez, K.. Gomez, .. (1984). Statistical Procedures Agricultural Research. Wiley-Interscience. Page 481. agridat::gomez.rice.uniformity Gopalakrishna, S. (1992). Optimum plot size shape, block size shape relative efficiency designs field experiments navane (Setaria italica). Thesis. https://krishikosh.egranth.ac./handle/1/5810120871 Reviewed. data. Goulden, C. H. (1937). Efficiency field trials pseudo-factorial incomplete randomized block methods. Canadian Journal Research, 15. https://doi.org/10.1139/cjr37c-020 Reviewed. paper used uniformity trials papers (Batchelor, Wiebe, etc). Goulden, C. H. (1939). Methods statistical analysis, 1st ed. Page 18. https://archive.org/stream/methodsofstatist031744mbp version 20x20. full 48x48 data obtained Rothamsted. agridat::goulden.barley.uniformity Goyal, Manoj Kumar. (1998). Study uniformity trial wheat (Triticum aestivum L.). Thesis, Haryana Agricultural University. https://krishikosh.egranth.ac./handle/1/5810078304 . Reviewed. data. Guimarães, B. V. C., de Carvalho, . J., Aspiazú, ., da Silva, L. S., da Silva, R. R. P., Pimenta, . M. L., & Moura, M. M. . (2021). Optimal plot size experimentation common beans (Phaseolus vulgaris L.) northern region Minas Gerais, Brazil: Experimental plots. Revista de la Facultad de Ciencias Agrarias UNCuyo, 55-63, 1853-8665. https://doi.org/10.48162/rev.39.039 Reviewed. data. Guimarães, Bruno Vinícius Castro, et al. (2020). Optimal plot size experimental trials Opuntia cactus pear. Acta Scientiarum. Technology 42 (2020): e42579-e42579. https://doi.org/10.5539/jas.v11n18p206 Reviewed. data. Gupton, C.L. (1972). Estimates Optimum Plot Size Shape Uniformity Data Burley Tobacco (Nicotiana tabacum L.). Agron. J., 64, 678-682. https://doi.org/10.2134/agronj1972.00021962006400050038x Reviewed. data. Haapanen, Matti (1992). Effet plot size shape efficiency progeny tests. Silva Fennica, 26, 201-209. Reviewed. data. Handa, D. P.; Sreenath, P. R., & Rajpali, S. K. (1995). Uniformity trial lucerne grown fodder. Grass Forage Science, 50(3), 209–216. https://doi.org/10.1111/j.1365-2494.1995.tb02316.x Reviewed. data. Hansen, Niels Anton (1914). Prøvedyrkning paa Forsøgsstationen ved Aarslev. Tidsskrift landbrugets planteavl, Bind 21, page 553. Danish. https://dca.au.dk/publikationer/historiske/planteavl/ Reviewed. agridat::hansen.multi.uniformity Haque, H. N. Azad, N. K. Jha, R. N. Sing, S. N. (1988). Optimum Size Shape Plots Wheat. Annals Agricultural Research, 9, 165-170. https://eurekamag.com/research/001/901/001901913.php Reviewed. data. criterion selection optimum plot size CV point maximum curvature. Hariharan, V., Jacob Thomas, M. George, K.C. (1986). Optimum size shape plots field experiments brinjal. Agricultural Research Journal Kerala, 24(2), 189-194. https://krishikosh.egranth.ac./handle/1/5810100010 Reviewed. data. Haritonenko, Pavlo. Neue Präzisionsmethoden auf den Versuchsfeldern. Arbeiten der landw. Versuchsstation Iwanowskoje 1904-06, S. 159. Russian German summary. Original found. Data appears Roemer (1920). Harris, J Arthur Scofield, CS. (1920). Permanence differences plats experimental field. Jour. Agr. Res., 20, 335-356. https://naldc.nal.usda.gov/catalog/IND43966236 agridat::harris.multi.uniformity Harris, J. Arthur Scofield, CS. (1928). studies permanence differences plots experimental field. Jour. Agr. Res. 36, 15–40. https://naldc.nal.usda.gov/catalog/IND43967538 agridat::harris.multi.uniformity Harris, J.. 1920. Practical universality field heterogeneity factor influencing plot yields. Journal Agricultural Research, 19, 279–314. Page 296-297. https://books.google.com/books?id=jyEXAAAAYAAJ&pg=PA279 agridat::harris.multi.uniformity Hartman, J. D.; E. C. Stair (1942). Field plot technique studies tomatoes. Proceedings American Society Horticultural Science, 41, 315-320. https://archive.org/details/.ernet.dli.2015.240678 agridat::hartman.tomato.uniformity Hatheway, W. H., E. J. Williams. (1958). Efficient estimation relationship plot size variability crop yields. Biometrics, 14, 207-222. https://doi.org/10.2307/2527785 Reviewed. data. Hatton, R. G.; N. H. Grubb & R. C. Knight (1928) Black Currant Variety Trials: Reliability Results. Journal Pomology Horticultural Science, 4:4, 200-220. https://doi.org/10.1080/03683621.1925.11513282 used. data 21 bushes * 4 years 52 bushes * 4 years. Hayes, H. K. . C. Arny (1917). Experiments field technic rod row tests. J. Agr. Res. 11, 399-419. Reviewed. data. Heath, O.V.S. (1970). Investigation Experiment. Table 1. https://archive.org/details/investigationbye0000heat agridat::heath.raddish.uniformity Heidmann, T. (1988). Startkarakterisering af arealer til systemforskning . Forsøgsarealer, måleprogram og metoder. Tidsskrift Planteavls Specialserie. S 1958, 89 pp. https://dca.au.dk/publikationer/historiske/planteavlspecial/ data. obvious data found field 26x20 plots. Mentioned Kristensen (2003). Heidmann, T. (1989). Startkarakterisering af arealer til systemforskning: IV Resultater fra arealet ved Jyndevad. Tidsskrift Planteavls Specialserie. S 2021, 163 pp. https://dca.au.dk/publikationer/historiske/planteavlspecial/ data. obvious data found field 26x20 plots. Mentioned Kristensen (2003). Hidalgo, Eduardo Calero Calero (1965). Estudio Del Tamano Y Forma De La Parcela Experimental Para Ensayos De Campo En Frijol (Phaseolus vulgaris L.). Instituto Interamericano de Ciencias Agricolas de la OEA. https://www.google.com/books/edition/Estudio_Del_Tamano_Y_Forma_De_La_Parcela/rNIOAQAAIAAJ data. Spanish. Hodnett, G.E. Uniformity Trial Groundnuts. Journal Agricultural Science, 43, 323-328. https://doi.org/10.1017/S002185960005749X Reviewed. data. Holle, Michael. 1960. Plot technique field evaluation three characters lima bean. Master’s Thesis, Iowa State University. digital copy available. Reviweed. data. Holtsmark, G Larsen, BR (1905). Om Muligheder indskraenke de Fejl, som ved Markforsog betinges af Jordens Uensartethed. Tidsskrift Landbrugets Planteavl. 12, 330-351. (Danish) https://books.google.com/books?id=MdM0AQAAMAAJ&pg=PA330 https://dca.au.dk/publikationer/historiske/planteavl/ agridat::holtsmark.timothy.uniformity Hudson, H. G. (1939). Population studies wheat: 1. Sampling. J. Agric. Sci, 29, 76-109. https://doi.org/10.1017/s0021859600051571 Reviewed. data. researchers collected 7200 plots * 13 traits = 93,000 data points. Evaluation possible use “Hollerith equipment”. Humada-Gonzalez, G.G. (2013). Estimação tamanho otimo de parcela experimental em experimento com soja. Dissertation, Universidade Federal de Lavras. http://repositorio.ufla.br/jspui/handle/1/744 Reviewed. data published data agridat::dasilva.soybean.uniformity. Humada-Gonzalez, G.G.; Barbuio, R.; Cardozo, N.; MOREIRA, J.M.; Llanes Oviedo, L. Estimação tamanho otimo de parcela experimental em experimento com soja transgenica. : semana de iniciação cientifica e seminario integrado da Pos-graduação, 2018 Goias Brasil semana de iniciação cientifica e seminario integrado da Pos-graduação. 2018. Humada González G. G., Ramalho de Morais , Caballero Mendoza CA, Bortolini J, Rodrigues Liska G. (2018). Estimation Optimum Plot Size Experimentation Sweet Potato. Agrociencia Uruguay, 22(2):e13. https://agrocienciauruguay.uy/index.php/agrociencia/article/view/13 Reviewed. data. Idrees, Nadia; Muhammad Inayat Khan (2009). Design improvement using uniformity trials experimental data. Pak. J. Agri. Sci., Vol. 46(4), 2009. https://pakjas.com.pk Reviewed. data. Igue, Toshio; Ademar Espironelo, Heitor Cantarella, Erseni Joao Nelli. (1991). Tamanho e forma de parcela experimental para cana-de-acucar (Plot size shape sugar cane experiments). Bragantia, 50, 163-180. Appendix, page 169-170. https://doi.org/10.1590/S0006-87051991000100016 agridat::igue.sugarcane.uniformity Immer, F. R. (1932). Size shape plot relation field experiments sugar beets. Jour. Agr. Research, 44, 649–668. https://naldc.nal.usda.gov/download/IND43968078/PDF agridat::immer.sugarbeet.uniformity Immer, F. R. S. M. Raleigh (1933). studies size shape plot relation field experiments sugar beets. Journal Agricultural Research, 47, 591-598. https://naldc.nal.usda.gov/download/IND43968370/PDF agridat::immer.sugarbeet.uniformity Iyer, P. V. Krishna (1942). Studies wheat uniformity trial data. . Size shape experimental plots relative efficiency different layouts. Indian Journal Agricultural Science, 12, 240-262. Page 259-262. https://archive.org/stream/.ernet.dli.2015.7638/2015.7638.-Indian-Journal--Agricultural-Science-Vol-xii-1942#page/n267/mode/2up agridat::iyer.wheat.uniformity Jaggard, K. W. (1975). size shape plots sugar-beet experiments. Annals Applied Biology, 80(3), 351–357. https://doi.org/10.1111/j.1744-7348.1975.tb01641.x Reviewed. data. Jain, M. B. Studies techniques field trials range lands . Size, Shape arrangement plots. Jain, M. B. R. K. Bohra. Size Shape Plots Blocks field Experiments Lasiurus Sindicus. Reviewed. data. James, W. C., & Shih, C. S. (1973). Size Shape Plots Estimating Yield Losses Cereal Foliage Diseases. Experimental Agriculture, 9(01), 63. https://doi.org/10.1017/s0014479700023693 Reviewed. data. Jegorow, M. (1909). Zur Methodik des feldversuches. Russian Journ Expt Agric, 10, 502-520. https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/510jAQAAIAAJ?hl=en uniformity trial oats. agridat::jegorow.oats.uniformity Joachim, .W.R. 1935. uniformity trial coconuts. Trop. Agric. Mag. Ceylon. Agric. Soc. 85:198-207. https://eurekamag.com/research/013/298/013298524.php https://southasiacommons.net/artifacts/2343967/-tropical-agriculturist/3172871/ Reviewed. data, blocks different sizes. used. Johnson, .J. & Murphy, H.C. 1943. Lattice lattice square designs oat uniformity data varietal trials. J. Agric. Sci., 22, 366-372. https://doi.org/10.2134/agronj1943.00021962003500040004x data. contour map fertility. Jones, W.W.; T.W. Embleton; C.B. Cree. (1957). Number Replications Plot Sizes Required Reliable Evaluation Nutritional Studies Yield Relationships Citrus Avocado. American Society Horticultural Science, 69:208-216. Reviewed. data. Fruit yields much variable quality factors. Jones, Marcus; Marin Harbur, Ken J. Moore (2021). Automating Uniformity Trials Optimize Precision Agronomic Field Trials. Agronomy 2021, 11, 1254. https://doi.org/10.3390/agronomy11061254 agridat::jones.corn.uniformity Data 12x12 corn expt. Jua, Junagadh. Optimum plot size field experiments tomato – statistical investigation. Thesis, Junagadh Agricultural University. https://krishikosh.egranth.ac./handle/1/5810006490. Reviewed. data. Justesen, S. (1932). Influence Size Shape Plots Precision Field Experiments Potatoes. Journal Agricultural Science, 22(2), 366-372. doi:10.1017/S0021859600053685 https://doi.org/10.1017/S0021859600053685 Reviewed. data. Conclusion: Long, narrow plots efficient (unless competition rows). Kadam, B. S. Kadam; S. M. Patel. (1937). Studies Field-Plot Technique P. Typhoideum Rich. Empire Journal Experimental Agriculture, 5, 219-230. https://archive.org/details/.ernet.dli.2015.25282 agridat::kadam.millet.uniformity Kalamkar, R.J. (1932). Experimental Error Field-Plot Technique Potatoes. Journal Agricultural Science, 22, 373-385. https://doi.org/10.1017/S0021859600053697 agridat::kalamkar.potato.uniformity Kalamkar, R. J (1932). Study Sampling Technique Wheat. Journal Agricultural Science, Vol.22(4), pp.783-796. https://doi.org/10.1017/S0021859600054599 agridat::kalamkar.wheat.uniformity Katyal, Visay (1994). Relative efficiency neighbouring techniques block design field experiments wheat Sodic soils. J. Ind. Soc. Ag. Stat. 46, 231-234. Reviewed. data. Kaushik, L. S., R. P. Singh, T. P. Yadava. (1977). uniformity trial mustard [India]. Indian Journal Agricultural Sciences. Reviewed. data. Kavitha, B. (2010). Study optimum plot size optimum plot shape soybean crop. https://krishikosh.egranth.ac./handle/1/84302 Reviewed. data. Keller, Kenneth R. (1949). Uniformity Trial Hops, Humulus lupulus L., Increasing Precision Field Experiments. https://doi.org/10.2134/agronj1949.00021962004100080011x Reviewed. data. Keller, K.R. (1951). Relative Efficiency Rectangular Triple Rectangular Lattice Designs Using Hop Uniformity Trial Data. Agron. J., 43: 93-96. https://doi.org/10.2134/agronj1951.00021962004300020009x Reviewed. data. Kempton, R. . C. W. Howes (1981). use neighbouring plot values analysis variety trials. Applied Statistics, 30, 59–70. https://doi.org/10.2307/2346657 agridat::kempton.barley.uniformity Kerr, H. W. (1939). Notes plot technique. Proc. Internat. Soc. Sugarcane Technol. 6, 764-778. agridat::kerr.sugarcane.uniformity Khan, Abdur Rashid Jage Ram Dalal (1943). Optimum Size Shape Plots Brassica Experiments Punjab. Sankhyā: Indian Journal Statistics ,6, 3. Proceedings Indian Statistical Conference 1942 (1943), pp. 317-320 (4 pages). https://www.jstor.org/stable/25047782 agridat::khan.brassica.uniformity Khan, Mujahid; Ramesh Chander Hasija; Des Raj Aneja; Manish Kumar Sharma (2016). uniformity trial Indian mustard determination optimum size shape blocks. Journal Applied Natural Science 8 (3): 1589 - 1593. Reviewed. data. Khan, Mujahid & R. C. HASIJA NITIN TANWAR (2017). Optimum size shape plots based data uniformity trial Indian Mustard Haryana. MAUSAM, 68, 67-74. https://doi.org/10.54302/mausam.v68i1.434 Reviewed. data. Khin, San. 1950. Investigation relative costs rice experiments based efficiency designs. Dissertation: Imperial College Tropical Agriculture (ICTA). Appendix XV. https://uwispace.sta.uwi.edu/dspace/handle/2139/42396 agridat::khin.rice.uniformity Khurana, Alka. (1991). Study Uniformity Trial Soyabean. Thesis, Haryana Agricultural University. https://krishikosh.egranth.ac./handle/1/5810076525 Reviewed. data. Smith’s Law. Kiesselbach, Theodore . (1917). Studies Concerning Elimination Experimental Error Comparative Crop Tests. University Nebraska Agricultural Experiment Station Research Bulletin . 13. Pages 51-72. https://archive.org/details/StudiesConcerningTheEliminationOfExperimentalErrorInComparativeCrop https://digitalcommons.unl.edu/extensionhist/430/ agridat::kiesselbach.oats.uniformity Koch, E.J. Rigney, J.. (1951). Method Estimating Optimum Plot Size Experimental Data. Agron. J., 43: 17-21. https://doi.org/10.2134/agronj1951.00021962004300010005x Reviewed. data. Idea: footnote paper says paper part MS Thesis North Carolina State. unable find online. Kulkarni, R. K., Bose, S. S., Mahalanobis, P. C. (1936). influence shape size plots effective precision field experiments sorghum. Indian J. Agric. Sci., 6, 460-474. Appendix 1, page 172. https://archive.org/details/.ernet.dli.2015.271737 agridat::kulkarni.sorghum.uniformity Kristensen, R. K. (1925). Anlaeg og Opgoerelse af Markforsoeg. Tidsskrift landbrugets planteavl, Vol 31, 464-494. Fig 1, pg. 467. https://dca.au.dk/publikationer/historiske/planteavl/ agridat::kristensen.barley.uniformity Kristensen, K. (2003). Incomplete split-plots variety trials - based -designs. : Biuletyn Oceny Odmian, 31, pp. 7-17. Reviewed. data. Refers papers uniformity trials. Krysczun, Dionatan Ketzer; Lúcio, Alessandro Dal’Col; Sari, Bruno Giacomini; Diel, Maria Inês; Olivoto, Tiago; Santana, Cinthya Souza; Ubessi, Cassiane; Schabarum, Denison Esequiel (2018). Sample size, plot size number replications trials Solanum melongena L.. Scientia Horticulturae, 233(), 220–224. https://doi.org/10.1016/j.scienta.2018.01.044 Reviewed. data. Krysczun, Dionatan, Alessandro D. Lúcio, Bruno G. Sari, Maria . Diel, Tiago Olivoto, José . G. da Silva, Cinthya S. Santana, Patrícia J. Melo, & Sabrina M. Gomes. (2018). Size Uniformity Trial Affects Accuracy Plot Size Estimation Eggplant. Journal Agricultural Science; Vol. 10, . 11. https://www.researchgate.net/publication/328291020 Reviewed. data. Kuehl, R.O. Kittock, D.L. (1969). Estimate Optimum Plot Size Cotton Yield Trials. Agron. Journal, 61: 584-586. https://doi.org/10.2134/agronj1969.00021962006100040031x data. Kumar, Ajay. 1999. study uniformity trial sesame (Til) Sesamum indicum. https://krishikosh.egranth.ac./handle/1/5810078711. Reviewed. data. Kumar, Ajay; Kiran Kapoor; Gupta, S. C.; Hasija, R. C. Uniformity trial sesame Sesamum indicum. https://eurekamag.com/research/017/592/017592269.php found. find Kumar’s thesis, data. Lakhera, M.L.; M.. Ali (1996). Optimum plot size shape estimates sunflower yield trials. Journal Maharashtra Agricultural Universities 21(3): 350-353 Reviewed. data. Optimum plot size 20 units, 10 rows 2 m long. Lamb, J.., Dowdy, R.H., Anderson, J.L. Rehm, G.W. (1997). Spatial Temporal Stability Corn Grain Yields. Journal Production Agriculture, 10: 410-414. https://doi.org/10.2134/jpa1997.0410 Reviewed. data plots 5 years, scaled relative yield year, harvested area 20-foot long 60-foot long plot. Decided use. Lambert, Edmund B. (1934). Size arrangement plots yield tests cultivated mushrooms. Journal Agricultural Research, Vol 48, 971-980. https://naldc.nal.usda.gov/naldc/download.xhtml?id=IND43968493 Reviewed. used. Uniformity trial three locations mushrooms growth houses. Lander, P. E. et al. (1938). Soil Uniformity Trials Punjab . Ind. J. Agr. Sci. 8:271-307. agridat::lander.multi.uniformity Lavezo, André; Alberto Cargnelutti Filho, Cláudia Marques de Bem, Cláudia Burin, Jéssica Andiara Kleinpaul, Rafael Vieira Pezzini. Plot size number replications evaluate grain yield oat cultivars. Bragantia, Campinas, v. 76, n. 4, p.512-520, 2017. https://doi.org/10.1590/1678-4499.2016.410 Reviewed. data. Laycock, D. H. (1955). effect plot shape reducing errors tea experiments. Tropical Agriculture, 32, 107-114. agridat::laycock.tea.uniformity Lehmann, . Ninth Annual Report Agricultural Chemist Year 1907-08. Department Agriculture, Mysore State. [2nd-9th] Annual Report Agricultural Chemist. https://books.google.com/books?id=u_dHAAAAYAAJ agridat::lehmann.millet.uniformity Lessman, Koert James (1962). Comparisons methods testing grain yield sorghum. Iowa State University. Retrospective Theses Dissertations. Paper 2063. Appendix Table 17. https://dr.lib.iastate.edu/handle/20.500.12876/73575 agridat::lessman.sorghum.uniformity Lessman, K.J. Atkins, R.E. (1963). Optimum Plot Size Relative Efficiency Lattice Designs Grain Sorghum Yield Tests. Crop Science, 3: 477-481 https://doi.org/10.2135/cropsci1963.0011183X000300060006x Reviewed. See Lessman thesis data. agridat::lessman.sorghum.uniformity Li, HW Meng, CJ Liu, TN. 1936. Field Results Millet Breeding Experiment. Agronomy Journal, 28, 1-15. Table 1. DOI: 10.2134/agronj1936.00021962002800010001x agridat::li.millet.uniformity Ligon, L. L. (1930). Size Plat Number Replications Field Experiments Cotton. Agronomy Journal, 22, 689-699. https://doi.org/10.2134/agronj1930.00021962002200080003x Reviewed. uniformity test, rather ‘cultural’ test ‘varietal’ test. Liji, Kumari (1997). Optimum size plots coconut using multivariate techniques. Thesis, Kerala Agriculture Univ. Reviewed. data. Lizy, M.J. (1986). Uniformity trials colocasia. https://krishikosh.egranth.ac./handle/1/5810113181 Reviewed. data. Lizy, M. J.; K. C. George Jacob Thomas (1988). Optimum Size Shape Plots Colocasia. Agric. Res. J. Kerala, 25, 241-248. http://14.139.185.57:8080/jspui/bitstream/123456789/4103/1/25_2_241-248_0002-1628.pdf Reviewed. data. Lizy, M.J.; George, K.C.; Thomas, M.J. (1988). Optimum size shape plots colocasia (Colocasia esculenta L.) Agricultural Research Journal Kerala 25(2): 241-248 https://eurekamag.com/research/001/901/001901914.php Paper found, Lizy thesis found, data. Loesell, Clarence (1936). Size plot & number replications necessary varietal trials white pea beans. Thesis, Michigan State. https://d.lib.msu.edu/etd/5271 agridat::loesell.bean.uniformity Lohmor, Nishu (2015). Estimation optimum plot size, shape number replications sunflower (Helianthus annuus). Thesis. https://krishikosh.egranth.ac./handle/1/81261 Reviewed. data. Lohmor, Nishu; Mujahid Khan; Kiran Kapoor; Nitin Tanwar (2017). Study Optimum Block Size Shape Uniformity Trial Sunflower (Helianthus annuus). Advances Research, 9, 1-8. 2017. Reviewed. data. Lord, L. (1931). Uniformity Trial Irrigated Broadcast Rice. Journal Agricultural Science, 21(1), 178-188. https://doi.org/10.1017/S0021859600008029 agridat::lord.rice.uniformity Love, Harry (1937). Application Statistical Methods Agricultural Research. Commercial Press, Shanghai. Page 411. https://archive.org/details/.ernet.dli.2015.233346/page/n421 agridat::love.cotton.uniformity Love, H.H. W.T. Craig (1938). Investigations plot technic small grains. Cornell University, Memoir 214. https://catalog.hathitrust.org/Record/011481484 Reviewed. data. Described 3 trials 600 plots. Lorentz, Leandro Homrich; Alexandra Augusti Boligon; Lindolfo Storck; Alessandro Dal’Col Lúcio. (2010). Plot size experimental precision sunflower production. Sci. Agric. (Piracicaba, Braz.), v.67, n.4, p.408-413. Reviewed. data. Love, H. H. (1936). Uniformity Trials Useful?. Agronomy Journal, 28(3), 234. https://10.2134/agronj1936.00021962002800030007x Reviewed. data. Lúcio, . D. C., Nunes, L. F., Rego, F., & Pasini, M. P. (2016). Relations zero-inflated variables trials horticultural crops. Spanish Journal Agricultural Research, 14(2), 17. https://dialnet.unirioja.es/servlet/articulo?codigo=6802883 Reviewed. data. Lúcio, . D. C., & Benz, V. (2016). Accuracy estimates zucchini production related plot size number harvests. Ciência Rural, 47. https://doi.org/10.1590/0103-8478cr20160078 Reviewed. data. Lucyamma, Mathew. (1986). Standardization field plot technique cashew. Diss. Department Statistics, Kerala Agricultural University. https://krishikosh.egranth.ac./handle/1/5810142095 Reviewed. data. Page 34 details. 294 trees, 8 years (combined 4). Lyon, T.L. (1911). experiments estimate errors field plat tests. Proc. Amer. Soc. Agron, 3, 89-114. Table III. https://doi.org/10.2134/agronj1911.00021962000300010016x agridat::lyon.potato.uniformity MacDonald, D. Fielding, W. L. Ruston, D. F. (1939). Experimental methods cotton: . design plots variety trials. Journal Agricultural Science, 29, 35-47. http://dx.doi.org/10.1017/S0021859600051534 Reviewed. data. Two heatmaps fields. Magistad, O. C.; & C. . Farden (1934). Experimental Error Field Experiments Pineapples. Journal American Society Agronomy, 26, 631–643. agridat::magistad.pineapple.uniformity Masood, M Asif Irum Raza Muhammad Yaseen. 2012. Estimation optimum field plot size shape paddy yield trial. Pakistan J. Agric. Res., Vol. 25 . 4, 2012 agridat::masood.rice.uniformity McClelland, Chalmer Kirk (1926). determinations plat variability. Agronomy Journal, 18, 819-823. https://doi.org/10.2134/agronj1926.00021962001800090009x agridat::mcclelland.corn.uniformity Meier, V.D. Lessman, K.J. (1971). Estimation Optimum Field Plot Shape Size Testing Yield Crambe abyssinica Hochst. Crop Science, 11: 648-650. https://doi.org/10.2135/cropsci1971.0011183X001100050013x Reviewed. data. Idea: thesis Meier Perdue University. looked online found anything. Mercer, WB Hall, AD, (1911). experimental error field trials Journal Agricultural Science, 4, 107-132. Table 1. https://doi.org/10.1017/S002185960000160X agridat::mercer.mangold.uniformity agridat::mercer.wheat.uniformity Miller, John D., E. James Koch. (1962) “Plot Technique Study Birdsfoot Trefoil”. Agronomy Journal, 54, 95-97. https://acsess.onlinelibrary.wiley.com/doi/abs/10.2134/agronj1962.00021962005400020001x Reviewed. data. Mitscherlich, Alfred Franz Dühring. (1921). Über die Größe der Teilstücke bei Feldversuchen. Die Landwirtschaftlichen Versuchsstationen. Bd. XCVIII. 1921 p. 365-383. https://archive.org/details/dielandwirtschaf9819reun/page/364/mode/2up Reviewed. data given. Used datasets Roemer (1920). Miyaska, Susan C.; Charles E. McCulloch, Graham E. Fogg, James R. Hollyer. Optimum Plot Size Field Trials Taro (Colocasia esculenta). HortScience 48, 435-443. https://doi.org/10.21273/HORTSCI.48.4.435 Reviewed. data. Optimum plot size 18-21 plants (4.9 - 5.7 m^2). Modjeska, Janet aspects spatial analysis uniformity data. Inst. Statistics Mimeo Series 1345. Used data Batchelor & Reid. Modjeska, J. S., & Rawlings, J. O. (1983). Spatial Correlation Analysis Uniformity Data. Biometrics, 39(2), 373. https://doi.org/10.2307/2531010 Used data Batchelor & Reid. Mohammed, Ali Abulgasim. analysis autonormal moels correlation struture applied uniformity data. Institute Statistics Mimeograph Series . 1313. Reviewed. data. Montgomery, E. G. (1912). Variation Yield Methods Arranging Plats Secure Comparative Results. Twenty-Fifth Annual Report Agricultural Experiment Station Nebraska, 164-180. https://books.google.com/books?id=M-5BAQAAMAAJ&pg=RA4-PA164 agridat::montgomery.wheat.uniformity Montgomery, E. G. (1913). Experiments Wheat Breeding: Experimental Error Nursery Variation Nitrogen Yield. U.S. Dept Agriculture, Bureau Plant Industry, Bulletin 269. Figure 10, page 37. https://doi.org/10.5962/bhl.title.43602 agridat::montgomery.wheat.uniformity Moore, John F Darroch, JG. (1956). Field plot technique Blue Lake pole beans, bush beans, carrots, sweet corn, spring fall cauliflower. Washington Agricultural Experiment Stations, Institute Agricultural Sciences, State College Washington. https://babel.hathitrust.org/cgi/pt?id=uiug.30112019919072&view=1up&seq=33&skin=2021 agridat::moore.uniformity Mortensen, M. L. (1911). Die Technik der Feldversuche (Technique Field Experiments). Jahresbericht der Vereinigung für Angewandte Botanik, 9, 177-187. https://www.biodiversitylibrary.org/item/36059#page/573/mode/1up data. Muniya, Sejal ben. (2017). Plot size study mathematical approach. Thesis, Agricultural University Anand. https://krishikosh.egranth.ac./handle/1/5810115216 Reviewed. data. Murray, E. K. S. (1934). value uniformity trial field experimentation rubber. Journal Agricultural Science, 24(2), 177-184. https://doi.org/10.1017/s0021859600006572 Reviewed. used. 2 years 5x5 grid rubber trees. Based data archived Rothamsted, used time. see can get original data. Nagai, Violeta (1978). Tamanho da parcela e numero de repeticoes em experimentos com morangueiro (Plot size number repetitions experiments strawberry). Bragantia, 37, 71-81. Table 2, page 75. https://doi.org/10.1590/S0006-87051978000100009 agridat::nagai.strawberry.uniformity Nagardas, Motaka Ganapatlal (2006). Plot size study uniformity trial data durum wheat Bhal region. https://krishikosh.egranth.ac./handle/1/5810115906 Reviewed. data. Nair, Remesh B.; P. v. Prabhakaran (1983). Optimum size shape plots field experiments cashew. Agric Res J Kerrala, 21, 27-34. Reviewed. data. Nair, B. Gopakumaran Nair, (1984). Optimum plot size field experiments turmeric (Curcuma longa L) Thesis, Department Statistics, College Veterinary & Animal Sciences, Mannuthy. https://krishikosh.egranth.ac./handle/1/5810147397 agridat::nair.turmeric.uniformity Narain, R.; . Singh, (1940). note shape blocks field experiments. Ind. J. Agr. Sci., 10, 844-853. Page 845. https://archive.org/stream/.ernet.dli.2015.271745 agridat::narain.sorghum.uniformity Narayanan, R (1974). Estimation optimum plot size clone trials hevea. Journal Rubber Research Institute Malaysia 24(1): 54-67. https://rios.lgm.gov./cms/fedDigiJournalDetail.jsp?searchText=&selTab=digiCon&id=&type=JRR&issueYear=1974 Reviewed. data. Narayanbhai, P.J. (2005). Plot size study uniformity trial data French bean. https://krishikosh.egranth.ac./handle/1/5810115923 Reviewed. data. Neyman, J., & Iwaszkiewicz, K. (1935). Statistical problems agricultural experimentation. Supplement Journal Royal Statistical Society, 2(2), 107-180. Reviewed. Used datasets papers. Nokoe, Sagary & Rodomiro Ortiz (1998). Optimum Plot Size Banana Trials. HortScience 33, 130-132. https://hdl.handle.net/10568/95942 Reviewed. data. Nonnecke, Ib Libner. (1958). Yield variability sweet corn canning peas affected plot size shape. Thesis Oregon State College. https://hdl.handle.net/1957/23367 agridat::nonnecke.peas.uniformity agridat::nonnecke.sweetcorn.uniformity Nonnecke, . L. K. W. Smillie (1964). Precision field experiments vegetable crops influenced plot size shape III Potatoes. Canadian Jour Plant Science, 44, 57-65. https://doi.org/10.4141/cjps64-011 Reviewed. data. Obsi, Dechassa (2008). Application Spatial Modeling Study Soil Fertility Pattern. MS Thesis, Addis Ababa University. Page 122-125. http://etd.aau.edu.et/handle/123456789/3221 agridat::obsi.potato.uniformity Odland, TE Garber, RJ. (1928). Size Plat Number Replications Field Experiments Soybeans. Agronomy Journal, 20, 93–108. https://doi.org/10.2134/agronj1928.00021962002000020002x agridat::odland.soybean.uniformity Omanakuttan, Chithra (2015). Plot size study uniformity trial data mustard (Brassica juncea L.). M.S. Thesis, Sardarkrushinagar Dantiwada Agricultural University. https://krishikosh.egranth.ac./handle/1/5810116905 Reviewed. data. Onate, Burton. 1965. Size Shape Plot Rice Replicated Field Experiments. Philippine Statistician. Reviewed. data. Results indicate plot dimensions 4 rows 12 hills (3-5 sq m) relatively efficient bigger plots. CV observed 10 percent, implies 5 replicates needed detect mean difference 10 percent. Oscar Morgan, J. Experiments Determine Uniformity Certain Plats Field Tests. Agronomy Journal, 1, 58-67. https://doi.org/10.2134/agronj1907-1909.00021962000100010015x Reviewed. relative yields 1x63 plots wheat followed fodder corn season. included agridat experiment 1 plot wide. Oliveira, Sérgio José Ribeiro de. Dependência entre o tamanho da unidade básica e estimativas das dimensões da parcela experimental de batata. http://repositorio.ufsm.br/handle/1/3234 Diss. Universidade Federal de Santa Maria, 2005. Reviewed. data. Paardekooper, E.G. (1966). Results four uniformity trials determine influence plot size shape efficiency field experiments rubber. Res. -chs Rubb. Res. Inst. Malaya, Docum. 56. Reviewed. data. Paez Bogarin, Gilberto (1962). Estudios sobre tamano y forma de parcela para ensayos en cafe. Instituto Interamericano de Ciencias Agricolas de la O.E.. Centro Tropical de Investigacion y Ensenanza para Graduados. Costa Rica. https://www.google.com/books/edition/Estudio_Sobre_Tamano_Y_Forma_de_Parcela/7ScOAQAAIAAJ agridat::paez.coffee.uniformity Pal, Satyabrata; Ayanendranath Basu; Goutam Mandal; Asim Kumar Chakraborty; Arunava Ghosh (2016). State Art Review Methods Determination Robust Optimum Plot Size. International Journal Science Technology, 6. Reviewed. data. Pal, Satyabrata; Satyananda Basak; Subhabaha Pal; Sanpei Kageyama (2007). determination optimum size shape plots field trials. Biometrical Letters, 44, 23-31. Reviewed. data. Pal, Satyabrata; Goutam Mandal; Kajal Dihidar. (2015). Determination robust optimum plot size shape – model-based approach. Biometrical Letters, 52, 13-22. https://doi.org/10.1515/bile-2015-0002 Reviewed. data. Pan, Chien-liang (1935). Uniformity Trials Rice. Agronomy Journal, 27(4), 279–285. https://doi.org/10.2134/agronj1935.00021962002700040007x data. Panse, V. G. (1941). Studies technique field experiments. V. Size shape blocks arrangements plots cotton trials. Indian Journal Agricultural Science, 11, 850-867 https://archive.org/details/.ernet.dli.2015.271747/page/n955 agridat::panse.cotton.uniformity Panse & Sukhatme (1954). Statistical Methods Agricultural Workers. ICAR, New Delhi. Ch 7, p 141. https://archive.org/details/dli.scoerat.949statisticalmethodsforagriculturalworkers/page/138/mode/2up data Panse (1941). agridat::panse.cotton.uniformity Parker, E. R.; & L. D. Batchelor. (1932). Variation Yields Fruit Trees Relation Planning Future Experiments. Hilgardia, 7(2), 81-161. Tables 3-9. https://doi.org/10.3733/hilg.v07n02p081 agridat::parker.orange.uniformity Patel, J.B. (2004). Estimation Optimum Plot Size Field Experiment Green Gram (Phaseolus rediatus L.) https://krishikosh.egranth.ac./handle/1/5810072537 Reviewed. data. Patel, Natverlal M. (1967). Plot technique Bajri-Pennisetum typhoides. https://krishikosh.egranth.ac./handle/1/5810045227 Reviewed. data. Patel, Natverlal M. (1981). Plot size study bidi tobacco (Nicotiana tabacum L.). Thesis. https://krishikosh.egranth.ac./handle/1/5810045267 Reviewed. data. Patil, N.M. (1995). Optimum plot size shape, block size shape relative efficiency designs field experiments cowpea (Vigna unguiculata). https://krishikosh.egranth.ac./handle/1/5810119241 Reviewed. data. Patil, S. L. Narayana Reddy P. Bhaskra Rao (2010). Experimental Plot Size Shape Based Data Uniformity Trial Dryland Bengalgram (Cicer arietinum L.) Winter Season Vertisols Semi–Arid Tropics South India. Indian J.Dryland Agric. Res. & Dev. 2010 25(1) : 102-105. https://www.indianjournals.com/ijor.aspx?target=ijor:ijdard&volume=25&issue=1&article=015 Reviewed. data. Pearce, S. C.; & Jean M. S. Thom (1951). Study Plot-Size Nigerian Estate Cacao. Journal Horticultural Science, 26:4, 261-267. https://doi.org/10.1080/00221589.1951.11513739 Reviewed. data. Peiris, T. S. G.; R. O. Thattil (1997). Alternative methods determine plot sizes three crops: case study coconut data. COCOS (1997), 12, 44-53 http://doi.org/10.4038/cocos.v12i0.2165 Reviewed. data. References CRI (1985). Peiris, T. U. S. M. . B. Ranatunga (2005). Use Information Positional Variation Increasing Precision Field Experiments Tea. Sri Lanka Journ Tea Science 70, 10-17. http://dl.nsf.gov.lk/handle/1/19649 Reviewed. data. Pimentel, Gomes; Couto, H.T.Z. (1985). O Tamanho Ótimo de Parcela Experimental Para Ensaios com Eucaliptos (Optimum Experimental Plot Size Essays Eucalipt). Revista IPEF, Pirarcicaba, 31, 75. https://doi.org/10.1590/S0100-67622003000500009 Reviewed. data. Plaisted, Robert LeRoy (1954). Field plot techniques estimating onion yields. Master’s Thesis, Iowa State University. https://doi.org/10.31274/rtd-20200617-42 Reviewed. data. Pointer, John Pate E. James Koch (1961). Estimates Optimum Plot Size Uniformity Data Maryland Tobacco. Tobacco Science, 5-27, p. 112-117. Reviewed. data. Polson, David (1964). Estimation Optimum Size, Shape, Replicate Number Safflower Plots Yield Trials. Utah State University, Graduate Theses Dissertations, 2979. Table 6. https://digitalcommons.usu.edu/etd/2979/ agridat::polson.safflower.uniformity Poultney, R., Riley, J., & Webster, R. (1997). Optimizing plot size shape field experiments terraces. Experimental Agriculture, 33(01), 51–64. doi:10.1017/s0014479797000161 Reviewed. data. Heatmaps 5 terraces. Prabhakaran, P.V. (1974). Optimum plot size field experiments tapioca. Agricultural Research Journal Kerala, 12(1), 19-23. https://krishikosh.egranth.ac./handle/1/5810114240 Reviewed. data. Prajapati Rameshbhai, . (2005). Optimum size shape plot field experiments potato. Thesis. https://krishikosh.egranth.ac./handle/1/5810115905 Reviewed. data. Prabhakaran, P.V. (1978). Optimum plot size field trials banana. Agricultural Research Journal Kerala, 16(1), 33-38. https://krishikosh.egranth.ac./handle/1/5810115813 Reviewed. data. Rakhi, T. Arya V. Chandran, Vijayaraghava Kumar Brigit Joseph. Estimation Optimum Plot Size Shape Branching Variety Cassava (Manihot esculenta Crantz) Using Statistical Methods. Journal Root Crops, 2020, Vol. 46 . 1, pp. 58-62 https://journal.isrc./index.php/jrc/article/view/575/408 Reviewed. data. Ramani, C.V. (1995). Plot technique Lucern. https://krishikosh.egranth.ac./handle/1/5810046435 Reviewed. data. Rampton H. H. Roger G. Petersen. Relative efficiency plot sizes numbers replications indicated yields orchardgrass seed uniformity test. https://doi.org/10.2134/agronj1962.00021962005400030019x Reviewed. data. Reddy, M. N., C. K. Ramanatha Chetty (1982). Effect Plot Shape Variability Smith’s Variance Law. Experimental Agriculture, 18, 333-338. https://doi.org/10.1017/S0014479700000752 Reviewed. data. Reddy, M. Narayana; C. K. Ramanatha Chetty. (1985). Experimental plot size shape based data uniformity trial dryland pigeonpea. Indian J. Agric. Sci. Vol 55, Num 8, pp 538-543 found. Reddy, S.B.S. (1992). Uniformity trial groundnut. https://krishikosh.egranth.ac./handle/1/5810000021 data uniformity trial? Small dataset page 96, 20 plots 5 plants/plot. Branches/plant, leaves/plant, height plant. Reji. (1995). Optimum plot size intercropping experiments. Thesis, Kerala Agricultural University. Reynolds, D.T. D.T. Killough J.T. Vantine (1934). Size, shape, replication plats field experiments cotton. Agronomy Journal, 26, 725-734. https://doi.org/10.2134/agronj1934.00021962002600090003x Reviewed. data. Richter, C., & Kroschewski, B. (2012). Geostatistical Models Agricultural Field Experiments: Investigations Based Uniformity Trials. Agronomy Journal, 104(1), 91–105. https://doi.org/10.2134/agronj2011.0100 Reviewed. data. Trials conducted 1954-1958. Robinson, H.F.; J..Rigney P.H.Harvey (1948). Investigations Peanut Plot Technique Peanuts. Univ California Tech. Bul. 86. agridat::robinson.peanut.uniformity Roemer, T. (1920). Der Feldversuch. Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302. https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ agridat::roemer.sugarbeet.uniformity Rossettii, .G.; Pimentel Gomes, F. (1983). Determinação Tamanho Otimo de Parcelas em Ensaios Agricolas (Determination Optimum Plot Size Agricultural Essays). Pesq. agropec. bras., Brasilia, 18(5), 477. https://repositorio.usp.br/item/000724650 Reviewed. data. Spanish. Rossetti, .G.; Gomes, F.P. (1987). method determination optimum plot size experiments rubber trees (Hevea). J Nat Rubb Res (1987) 2(3):135-141 http://agris.upm.edu.:8080/dspace/handle/0/15652 Reviewed. data. Rothamsted Experimental Station (1927). Report 1925-1926 Supplement Guide Experimental Plots. Lawes Agricultural Trust, p. 154-155. http://www.era.rothamsted.ac.uk/eradoc/book/84 agridat::sawyer.wheat.uniformity Sagisi, Fancisca D.; Mariano B. de Ramos. Field Plot Sampling Techniques Virginia Tobacco. data uniformity trial part report. Salem, Manal M. Somaia . Barakat (2004). Estimation optimum plot size, number replications number sampling units Faba bean yield trails. J. Agric. Sci. Mansoura Univ., 29, 4375-4390. Reviewed. data. Samita, S.; R. O. Thattil Katulanda; N. E. M. Jayasekara. (1991). Optimum plot size rubber (Hevea brasiliensis). Tropical Agricultural Research, 3, 348-354. Reviewed. data. Sanders, H. G. (1930). note value uniformity trials subsequent experiments. Journal Agricultural Science, 20(01), 63. https://doi.org/10.1017/s0021859600088626  Reviewed. data. Used data Aarslev, Denmark. Sands, Daniel E. (1954). Determination Optimum Plot Size Estimating Mean Number Bolls. USDA. https://www.nass.usda.gov/Education_and_Outreach/Reports,_Presentations_and_Conferences/Yield_Reports/%20Determination%20of%20Optimum%20Plot%20Size%20for%20Estimating%20Mean%20Number%20of%20Bolls.pdf Reviewed. data. Sapěhin, . . (1927). Beiträge zur Methodik des Feldversuches. Die Landwirtschaflichen Versuchsstationen, 105, 243-259. https://www.google.com/books/edition/Die_Landwirthschaftlichen_Versuchs_Stati/cLZGAAAAYAAJ?hl=en&pg=PA243 agridat::jurowski.wheat.uniformity Sari, Bruno Giacomini; Alessandro Dal’Col Lucio. (2018). Uniformity trials size estimating cherry tomato plot size. Revista Ciência Agronômica, v. 49, n. 4, p. 653-662, -dez, 2018 http://ccarevista.ufc.br/seer/index.php/ccarevista/article/view/4462 Reviewed. data. Sayer, Wynne; M. Vaidyanathan S. Subrammonia Iyer (1936). Ideal size shape sugar-cane experimental plots based upon tonnage experiments Co 205 Co 213 conducted Pusa. Indian J. Agric. Sci., 1936, 6, 684-714. Appendex, page 712. https://archive.org/details/.ernet.dli.2015.271737 agridat::sayer.sugarcane.uniformity Sayer, Wynne; Krishna Iyer. (1936). factors influence error field experiments special reference sugar cane. Indian J. Agric. Sci., 1936, 6, 917-929. Appendix, page 927. https://archive.org/details/.ernet.dli.2015.271737 agridat::sayer.sugarcane.uniformity Schmildt, Edilson Romais; Adriel Lima Nascimento; Alan de Lima Nascimento; et al. Optimum plot size experiments papaya genotypes field. African Journal Agricultural Research, 13, 360-365. https://doi.org/10.5897/AJAR2017.12951 Reviewed. data. Optimum plot size four plants plot, using four replications. Schwertner, Diogo Vanderlei Alessandro Dal’Col Lúcio, Alberto Cargnelutti Filho. (2015). Uniformity trial size estimates plot size restrict areas. Revista Ciência Agronômica, v. 46, n. 3, p. 597-606. Reviewed. data. Schwertner, Diogo Vanderlei ; Alessandro Dal’Col Lúcio, Alberto Cargnelutti Filho. (2015). Size uniformity trials estimating optimum plot size vegetables. Horticultura Brasileira 33(3):388-393. http://dx.doi.org/10.1590/S0102-053620150000300019 Reviewed. data. Shaboon, Sh. Fateh, H. Fares, W. (2013). Utlization uniformity trials estimate optimum plot size shape number replications maize yield trials. Egyptian Journal Agricultural Sciences, 64, 379-388. http://dx.doi.org/10.21608/ejarc.2013.214342. Reviewed. data. Shafi, Sameera (2007). Aspects Plot Techniques Field Experiments Tomato (Lycopersicon esculentum mill.) Soils Kashmir. Thesis. Univ. Ag. Sciences & Technology Kashmir. Table 2.2.1. https://krishikosh.egranth.ac./handle/1/5810083035 agridat::shafi.tomato.uniformity Shafi, Sameera; S..Mir, Nageena Nazir, Anjum Rashid. (2010). Optimum plot size tomato using S-PLUS R-software’s soils Kashmir. Asian J. Soil Sci., 4, 311-314. https://www.researchjournal.co./upload/assignments/4_311-314.pdf agridat::shafi.tomato.uniformity Shah, Syed Asghar Ali; Murtaza Khan Alamgir (2016). Size, Shape . Replication Plot Relation Field Experiment Wheat Variety PIRSABAK-2004. Food Science Quality Management, 50. Reviewed. data. Sharma, Anju (1992). Determination optimum plot size estimation tomato (Lycopersicon esculentum Mill.) yield Saproon Valley Solan District (H.P.). https://krishikosh.egranth.ac./handle/1/5810067799 Reviewed. data. Sharpe, R. H., G. H. Blackmon, 1950 Study Plot Size Experimental Design Pecan Yield Data. . Soc. Hort. Sci. Pro. 56:236-241. Reviewed. data. Sheela, M (1987). Optimum size plots cocoa (Theobroma cacoa L.) multivariate case. Department Statistics, College Veterinary Animal Sciences, Mannuthy https://krishikosh.egranth.ac./handle/1/5810142527 Reviewed. data. Shitap, Shri M.S. (2011). Plot technique Brinjal (Solanum melongena L.) https://krishikosh.egranth.ac./handle/1/5810010600 Reviewed. data. table contents suggests data appears appendix, pages blank. Shitap, M. S. V. B. Darji (2014). optimum plot size shape field experimentation brinjal (Solanum melongena L.) middle Gujarat condition. International Research Journal Agricultural Economics Statistics, 5, 158-152. https://doi.org/10.15740//IRJAES/5.2/148-152 Reviewed. data. Shukla, . K., Subhash K. Yadav, Govind Ch. Misra (2013). linear model uniformity trial experiments. Statistics Transition, 14, 161-170. http://cejsh.icm.edu.pl/cejsh/element/bwmeta1.element.desklight-3d53acd5-91b2-41b1-a908-01a58b0fce65 Reviewed. data. (Appeared use data Haque, summary statistics, raw data). Shukla, Alok Kumar (2011). contributions estimation asymptotic regression statistical models. Dissertation, Chhatrapati Sahuji Maharaj University. http://hdl.handle.net/10603/228329 Reviewed. data. Siao, Fu. field plot technic study cotton. Found : Harry H. Love papers, 1907-1964. Box 3, folder 34, Cotton - Plot Technic Study 1930-1932. https://rmc.library.cornell.edu/EAD/htmldocs/RMA00890.html experiments Siao (1935). agridat::siao.cotton.uniformity Siao, Fu (1935). Uniformity trials cotton. J. Amer. Soc. Agron., 27, 974-979. https://doi.org/10.2134/agronj1935.00021962002700120004x Reviewed. data. Data found personal papers Harry Love. Sills, G. R., & Nienhuis, J. (1993). Field Plot Technique Affects Snap Bean Yield Evaluation. Journal American Society Horticultural Science, 118(5), 672-674. https://doi.org/10.21273/JASHS.118.5.672 Reviewed. data. Silva, Mauricio dos Santos da, et al. (2019) “Optimal size experimental plots papaya trees using modified maximum curvature method.” Ciência Rural 49 (2019). https://www.scielo.br/j/cr//CYZsbJzSD6SWpYB9X3WscqF/?lang=en Reviewed. data. Smith, Francis L. (1958). Effects plot size, plot shape, number replications efficacy bean yield trials. Hilgardia, 28, 43-63. https://doi.org/10.3733/hilg.v28n02p043 agridat::smith.beans.uniformity Smith, H. Fairfield (1938). empirical law describing heterogeneity yields agricultural crops. Journal Agricultural Science, volume 28, Issue 1, January 1938, pp. 1 - 23. https://doi.org/10.1017/S0021859600050516 agridat::smith.wheat.uniformity Smith, Louis H. 1910. Plot arrangement variety experiments corn. Agronomy Journal, 1, 84–89. Table 1. https://books.google.com/books?id=mQT0AAAAMAAJ&pg=PA84 agridat::smith.corn.uniformity Sokhal, Urmil (1982). College Efficiency Designs Bajra Relation Shape size Plot Block. https://krishikosh.egranth.ac./handle/1/5810055172 Reviewed. data. Soplin, H., H. D. Gross, J. O. Rawlings. (1975). Optimum Size Sampling Unit Estimate Coastal Bermudagrass Yield”. Agronomy Journal 67.4 (1975): 533-537. https://doi.org/10.2134/agronj1975.00021962006700040020x Reviewed. data. Stadler, Lewis John. (1921). Experiments field plot technic preliminary determination comparative yields small grains. University Missouri. https://hdl.handle.net/2027/umn.319510008017444 Reviewed. data. Uniformity trial discussed page 43. Stadler, L. J. (1926). Experimental Error Field Plot Tests. Proceedings International Congress Plant Sciences, Vol 1, 107-127. https://babel.hathitrust.org/cgi/pt?id=mdp.39015069524372&seq=197 Reviewed. original data. Used datasets similar Roemer (1920). Page 110 summarizes blank experiments 100 plots. Stephens, Joseph C. (1928). Experimental methods probable error field experiments sorghum. Journal Agricultural Research, 37, 629–646. https://naldc.nal.usda.gov/catalog/IND43967516 agridat::stephens.sorghum.uniformity Stickler, F. C. (1960). Estimates Optimum Plot Size Grain Sorghum Uniformity Trial Data. Technical bulletin, Kansas Agricultural Experiment Station. Page 17-20. https://babel.hathitrust.org/cgi/pt?id=uiug.30112019584322&view=1up&seq=21 agridat::stickler.sorghum.uniformity Stockberger, W. W. (1912). Study Individual Performance Hops. Journal Heredity, 1, 452-457. https://doi.org/10.1093/jhered/os-8.1.452 Reviewed. data. Stockem, J.E., Korontzis, G., Wilson, S.E. et al. (2021) Optimal Plot Dimensions Performance Testing Hybrid Potato Field. Potato Research, 65, 417–434. https://doi.org/10.1007/s11540-021-09526-9 Reviewed. data. Storck, Lindolfo (2010). Partial collection data potato yield experimental planning. Field Crops Research, 121, 286-290. https://doi.org/10.1016/j.fcr.2010.12.018. Reviewed. data. Storck, Lindolfo; Sidinei Lopes; Alessandro Dal’Col Lúcio; Alberto ​Cargnelutti Filho (2011). Optimum plot size number replications related selective precision. Ciência Rural 41(3):390-396. https://doi.org/10.1590/S0103-84782011000300005 https://www.researchgate.net/publication/270761907_Optimum_plot_size_and_number_of_replications_related_to_selective_precision data Strickland, . G. (1932). vine uniformity trial. Journal Agriculture, Victoria, 30, 584-593. Strickland, . G. (1935). Error horticultural experiments. Journal Agriculture, Victoria, 33, 408-416. agridat::strickland.apple.uniformity agridat::strickland.grape.uniformity agridat::strickland.peach.uniformity agridat::strickland.tomato.uniformity Strydom, G. J. (1966). Studies planning field experiments vegetable crops. S. Afr. J. Agric. Science 9, 183-194. https://hdl.handle.net/10520/AJA05858860_582 Reviewed. data. Summerby, R. (1923). Replication relation accuracy comparative crop tests. J. Soc Agron, 15. https://www.google.com/books/edition/Proceedings_of_the_American_Society_of_A/MWU4AQAAMAAJ Also: https://doi.org/10.2134/agronj1923.00021962001500050004x Reviewed. data. Data sent Rothamsted 1938. Two areas land, 100 links 505 links. One area Alaska Oats. Another area Huron wheat. fixme check can find Rothamsted papers. Summerby, R. (1925). Study Sizes Plats, Number Replications, Frequency Methods Using Check Plots Relation Accuracy Field Experiments. Jour. Amer. Soc, Agron. 17: 140-149. Reviewed. Data uniform. data-unused/summerby.oat.uniformity Summerby, R. (1934). value preliminary uniformity trials increasing precision field experiments. Macdonald College. https://books.google.com/books?id=6zlMAAAAYAAJ&pg=RA14-PA47 Reviewed. data 5x35 1x35 grid layouts. agridat::summerby.multi.uniformity. Swallow, William H.; Todd C. Wehner (1986). Optimum Plot Size Determination Application Cucumber Yield Trials. Euphytica, 35, 421-432. https://doi.org/10.1007/BF00021850 Reviewed. data. multiple-harvest yield trials, optimum plot sizes estimated 6.4 10.3 m^2. Swanson, .F. (1930). Variability Grain Sorghum Yields Influenced Size, Shape, Number Plats. Agron. J., 22: 833-838. https://doi.org/10.2134/agronj1930.00021962002200100002x Reviewed. data. Swearingin, M.L. Holt, D.. (1976). Using “Blank” trial teaching tool. Journal Agronomic Education, 5: 3-8. https://doi.org/10.2134/jae.1976.0003 Data 9 trials. trial RCBD 4 ‘varieties’ 4 reps. clear layout rows columns randomized. Taha, R.S. M.M. Shafik (2000). Relative precision incomplete block designs soybean uniformity trials optimum sample size. J. Agric. Sci. Mansoura Univ, 25, 5601-5610. Reviewed. data. Tartaglia, FdL, Lúcio, , Diel, MI, et al.  Experimental Plan Tests Pea. Agronomy Journal. 2021; 113: 1394–1406. https://doi.org/10.1002/agj2.20575 Reviewed. data. Taylor, F.W. (1907-1909). size experimental plot field crops. Proceedings annual Society agronomy 1, 56-58. https://acsess.onlinelibrary.wiley.com/doi/10.2134/agronj1907-1909.00021962000100010014x Reviewed. data. Taylor, Howard Lewis (1951). effect plot shape experimental error. Master’s Thesis, Iowa State University. Reviewed. digital copy available. data given. Used data corn uniformity trial, oats uniformity, data Fairfield Smith. Smaller experimental errors found long narrow plots. Tedin, Olof (1931). Influence Systematic Plot Arrangement upon Estimate Error field Experiments. J. Agric. Science, 21, 191-208. https://doi.org/10.1017/S0021859600008613 Reviewed. data. Uses uniformity trials papers. Thomas, H.L. Abou-El-Fittouh, H.. (1968) Optimum Plot Size Number Replications Estimating Forage Yield Moisture Percentage. Agron. J., 60: 549-550. https://doi.org/10.2134/agronj1968.00021962006000050031x Reviewed. data. Thompson, Ross C. (1934). Size, Shape, Orientation Plots Number Replications Required Sweetpotato Field-Plot Experiments. J. Agric. Rsch., 5, 379-399. https://naldc.nal.usda.gov/catalog/IND43968506 Reviewed. data. Interesting paper experiment conducted 4 plots year/loc combinations. Toebe, Marcos, et al. (2020). Plot size number replications ryegrass experiments. Ciência Rural 50.1. https://doi.org/10.1590/0103-8478cr20190195 Reviewed. data. Toebe, Marcos, et. al. (2022). Plot size number replicates ryegrass experiments sowed rows. Pesquisa Agropecuária Brasileira, v.57, e02976, 2022. DOI: https://doi.org/10.1590/S1678-3921.pab2022.v57.02976. Reviewed. data. Torrie, J.H., Schmidt, D.R. Tenpas, G.H. (1963). Estimates Optimum Plot Size Shape Replicate Number Forage Yield Alfalfa-Bromegrass Mixtures. Agron. Journal, 55: 258-260. https://doi.org/10.2134/agronj1963.00021962005500030015x Tulaikow, N. (1913) Resultate einer mathematischen Bearbeitung von Ernteergebnissen. Russian Journal fur Exp Landw., 14, 88-113. Russian German summary. Two uniformity trials winter summer wheat. agridat::tulaikow.wheat.uniformity Vagholkar, B. P. ; Apte, V. N. ; Iyer, S. S. (1940). study plot size shape technique field experiments sugarcane. Indian Journal Agricultural Science 1940 Vol.10 pp.388-403 https://archive.org/details/.ernet.dli.2015.25316/page/n437/mode/2up Reviewed. data. Vallejo, R.L. & H. . Mendoza (1988). Determination optimum plot size adequate number replications evaluate potato seedling populations. VIIth Symposium International Society Tropical Root Crops, Gosier (Guadeloupe), 1-6 July 1985, Ed. INRA, Paris, 1988. http://www.istrc.org/images/Documents/Symposiums/Seventh/7th_symposium_proceedings_0081.pdf Reviewed. data. Vallejo, Roger L.; VHumberto . Mendoza. (1992). Plot Technique Studies Sweetpotato Yield Trials. J. AMER. Soc. HORT. SCI. 117(3):508-511. https://doi.org/10.21273/JASHS.117.3.508 Reviewed. data. Vargas-Rojas, Jorge Claudio. (2020). Size shape experimental unit yield trials Brachiaria , hybrid CIAT 3608. https://www.semanticscholar.org/paper/Size--shape---experimental-unit--yield--Vargas-Rojas/e9964eca6ac42471aa44bc45e84bc376b02daf09 Vishnaadevi, S.; K. Prabakaran, E. Subramanian, P. Arunachalam. (2019). Determination fertility gradient direction optimum plot shape paddy crop Madurai District. Green Farming, 10, 155-159. https://www.researchgate.net/publication/333892867 agridat::vishnaadevi.rice.uniformity Warren, J.. Mendez, . (1981). Block Size Orientation, Allowance Positional Effects, Field Experiments. Experimental Agriculture, 17, 17 - 24. https://doi.org/10.1017/S0014479700011182 Reviewed. Used dozen existing datasets. Wassom R.R. Kalton. (1953). Estimations Optimum Plot Size Using Data Bromegrass Uniformity Trials. Agricultural Experiment Station, Iowa State College, Bulletin 396, page 314-319. https://lib.dr.iastate.edu/ag_researchbulletins/32/ https://babel.hathitrust.org/cgi/pt?id=uiug.30112019570701&view=1up&seq=26&skin=2021 agridat::wassom.brome.uniformity Webster, C. 1939. note uniformity trial oil palms. Tropical Agriculture, 16, 15-19. data according Mendez. Westover, Kyle C. (1924). influence plot size replication experimental error field trials potatoes. Agricultural Experiment Station, West Virginia University, . 189. https://babel.hathitrust.org/cgi/pt?id=uiug.30112019921359&view=1up&seq=1 https://www.google.com/books/edition/The_Influence_of_Plot_Size_and_Replicati/Px6K44dYd1QC Reviewed. data. Wiebe, G.. 1935. Variation Correlation Grain Yield among 1,500 Wheat Nursery Plots. Journal Agricultural Research, 50, 331-357. https://naldc.nal.usda.gov/download/IND43968632/PDF agridat::wiebe.wheat.uniformity Wiedemann, Alfred Max. 1962. Estimation Optimum Plot Size Shape Use Safflower Yield Trails. Table 5. Graduate Theses Dissertations. Paper 3600. Table 5. https://digitalcommons.usu.edu/etd/3600/ agridat::wiedemann.safflower.uniformity Wiedemann, .M. Leininger, L.N. (1963), Estimation Optimum Plot Size Shape Safflower Yield Trials. Agron. J., 55: 222-225. https://doi.org/10.2134/agronj1963.00021962005500030004x Reviewed. See Wiedemann thesis data. agridat::wiedemann.safflower.uniformity Williams, ER Luckett, DJ. (1988). use uniformity data design analysis cotton barley variety trials. Australian Journal Agricultural Research, 39, 339-350. https://doi.org/10.1071/AR9880339 agridat::williams.barley.uniformity agridat::williams.cotton.uniformity Wilson, C. E. Study plots laid field II view obtaining plot-fertility data use future experiments plots, season 1940-41. Dissertation: University West Indies. Page 36-39. https://uwispace.sta.uwi.edu/dspace/handle/2139/43658 See also dissertation Bradley. agridat::bardley.multi.uniformity Wilson, Wendell W. (1970). Texas Vegetable Remote Sensing Study, 1969 Determination Optimum Plot Size Shape Estimation Carrot Yield. Research Development Branch Standards Research Division Statistical Reporting Service. https://www.nass.usda.gov/Education_and_Outreach/Reports,_Presentations_and_Conferences/Yield_Reports/Texas%20Vegetable%20Remote%20Sensing%20Study%201969.pdf data found. Wood, T. B. F. J. M. Stratton. (1910). interpretation experimental results. J. Agric Sci 3, 417-440. Reviewed. data. Several plots distribution data. Wood, Ronald . (1972). Optimum Plot size winter wheat. Research & Development Branch, Standards Research Division Statistical Reporting Service. https://naldc.nal.usda.gov/catalog/27961 Reviewed. data. Wyatt, F. . (1927). Variation plot yields due soil heterogeneity. Scientific Agriculture, 7, 248-256. Table 1. https://doi.org/10.4141/sa-1927-0020 agridat::wyatt.multi.uniformity Yadav, Raj Pal. 1991. Spatial Correlation Analysis Uniformity Trial Data. College Basic Sciences Humanities Chaudhary Charan Singh Haryana Agricultural University Hisar. https://krishikosh.egranth.ac./handle/1/5810076755 Reviewed. data. Zandonadi, Cecília Uliana Viçosi, David Brunelli Fornazier, Maurício Lorenção Botacim, Luciana Aparecida Sousa, Douglas Gonzaga de Martinuzzo, Marx Bussular Alixandre, Fabiano Tristão Favarato, Luiz Fernando Krohling, Cesar Abel Guarçoni, Rogério Carvalho Alixandre, Ricardo Dias Fornazier, Maurício José (2022). Determining minimum size experimental plot evaluating field parameters Arabica coffee Research, Society Development, 11, 1-9. http://dx.doi.org/10.33448/rsd-v11i6.29384 Reviewed. data. Zhang, R . W. Warrick, D. E. Myers (1994). Heterogeneity, plot shape effect optimum plot size. Geoderma, 62, 183-197. https://doi.org/10.1016/0016-7061(94)90035-3 Reviewed. data. Oddly, appear use data Kuehl & Kittock, data paper. Zuber (1942). Relative Efficiency Incomplete Block Designs Using Corn Uniformity Trial Data. Agron Journal, 34, 30-47. https://doi.org/10.2134/agronj1942.00021962003400010004x Reviewed. Limited data, 3 reps 4x5. Zuhlke, Thomas . Gritton, E.T. (1969). Optimum Plot Size Shape Estimates Pea Yield Trials. Agron. J., 61: 905-908. https://doi.org/10.2134/agronj1969.00021962006100060023x Reviewed. data. Zuhlke, Thomas . Gritton, E.T. (1970). Relative Precision Different Experimental Designs Number Replications Pea Yield Trials. Agron J., 62, 61-64. https://doi.org/10.2134/agronj1970.00021962006200010020x Reviewed. data.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Roemer Note: Neyman (1935) says, “used data uniformity trials published T. Roemer (”Der Feldversuch, Berlin, 1920), suitable purpose, many rows columns. Cochran says Roemer: Sugarbeet: 96 plots 1916 1918 - table 1 & 3 Sugarbeet: 416 plots - table 4 Millet 105 plots (also Lehman) - table 13 Oats: 240 plots 8x30 - table 10 Ragi: 34 plots <—- fixme Timothy: 240 plots (also Holtsmark) - table 11 Summer wheat: 16x15=240 plots. Tulaikow Russian Journ Exp Agric , 14. (1913) - table 9 Winter wheat: 10x25=230 plots Tulaikow Russian Journ Exp Agric , 14. (1913) - table 8 Roemer (1920). Der Feldversuch. Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302. https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ Page34. P 37 mean. | Tab | Orig qm | Mu | Wt | unit | note | |—–|———|——|—-|————-|————————————————————————-| | 1 | 6.8 | 21.7 | kg | | agridat::roemer.sugarbeet.uniformity (1916) | | 2 | 6.8 | | kg | | 1917 2x48=96 plots | | 3 | 6.8 | 23.5 | kg | | agridat::roemer.sugarbeet.uniformity (1918) | | 4 | 136.5 | 617 | pf | 1.33 x 22.5 | agridat::haritonenko.sugarbeet.uniformity | | 5 | 20.2 | 329 | lb | 1/10 acre | agridat::mercer.mangold.uniformity | | 6 | 8.1 | 395 | lb | 1/10 acre | agridat::mercer.wheat.uniformity | | 7 | 2.8 | 681 | g | | agridat::montgomery.wheat.uniformity 1909, 14x16 | | 8 | 4.6 | 700 | g | qm | agridat::tulaikow.wheat.uniformity (winter) | | 9 | 4.6 | 532 | g | qm | agridat::tulaikow.wheat.uniformity (summer) | | 10 | 4.6 | 203 | kg | qm | agridat::jegorow.oats.uniformity | | 11 | 6.3 | 17.8 | kg | 25 qm | agridat::holtsmark.timothy.uniformity (orig 5m x 5m) | | 12 | 404.7 | 286 | lb | 20.2 qm | todo 17x2 4 years Lehmann rice | | 13 | 404.7 | 167 | lb | 20.2 qm | agridat::lehmann.millet.uniformity (20 rows instead 22) | Roemer (1925) Der Feldversuch. Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302. https://www.google.com/books/edition/Arbeiten/6LJGAAAAYAAJ","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-1","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Roemer (1920). Note, based note Larsen (240 plot * 25 sq m = 6000 sq m / 60 = 100 sq m per “” appears “” “= 100m^2”) Page 27 1-3. Eigene Versuche mit Zuckerrüben, ausgeführt auf dem Neßthaler Zuchtfeld des Kaiser-Wilhelm-Institutes, Bromberg, den Jahren 1916, 1917 und 1918. 1916 und 1918 war die Versuchsfläche ein und dieselbe, 6,80 groß und den beiden Jahren mit Original Klein-Wanzlebener Zuckerrüben auf 30 X 40 cm bebaut. Vorfrucht für 1916 war Hafer, für 1918 Roggen; 1917 war eine andere Fläche, ebenfalls 6,80 groß, für den Versuch benußt; gesät wurden zwei verschiedene Zuchten von Strube, Schlanstedt. Beide Flächen sind von sehr gleichmäßiger Bodenbeschaffenheit. Bei der Fläche 1916 und 1918 machte sich im ersten Jahre bei den Reihen 31-33 eine geringe Stelle bemerkbar, die 1918 weit weniger Erscheinung trat. Die Bodenunterschiede sind allen drei Jahren geringer als die durch die Versuchstechnik bedingten Fehler. Translated: (Roemer) experiments sugar beets, carried Neßthal breeding field Kaiser Wilhelm Institute, Bromberg, years 1916, 1917 1918. 1916 1918 test area one , 6.80 large original years Klein-Wanzleben sugar beets cultivated 30 x 40 cm. previous crop 1916 oats, 1918 rye; 1917 another area, also 6.80 large, used experiment; Two different varieties Strube, Schlanstedt sown. areas uniform soil conditions. 1916 1918 area, small spot noticeable rows 31-33 first year, much less noticeable 1918. three years soil differences smaller errors caused experimental technology.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-2","dir":"Articles","previous_headings":"—————————————————————————","what":"—","title":"Notes on uniformity data","text":"Haritonenko (36), Versuch der landwirtschaftlichen Versuchsstation Iwanowskoje, Gouvernement Nowgorod. Versuchsfläche 5 ha 68 mit 416 Teilstücken zu 136,5 qm. Die Reihe weist erheblich geringeren Boden auf als die drei anderen Reihen. Translated: Haritonenko (36), experiment Ivanovskoye Agricultural Experimental Station, Novgorod Governorate. Test area 5 ha 68 416 sections (plots) 136.5 square meters. Row significantly less soil three rows. Haritonenko, Pavlo. Neue Präzisionsmethoden auf den Versuchsfeldern. Arbeiten der landw. Versuchsstation Iwanowskoje 1904-06, S. 159. Note: P. Haritonenko sometimes translated Pavlo/Pavel Kharitonenko. English: Pavel Kharitonenko Russian: Павел Иванович Харитоненко Russian name Journal: Журнал опытной агрономии Paper volume? Zhurnal opytnoĭ agronomii. Russisches journal fūr experimentelle landwirtschaft. Journal de l’agriculture experimentale v.5 (1904) https://babel.hathitrust.org/cgi/pt?id=uc1.b2907722&seq=770 1905 vol 6. Paper volume? https://babel.hathitrust.org/cgi/pt?id=uc1.b2907723&seq=8 List volumes . Missing 1906 issue 1-2 https://catalog.hathitrust.org/Record/007918356","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-3","dir":"Articles","previous_headings":"—————————————————————————","what":"—-","title":"Notes on uniformity data","text":"Mercer und Hall (71), Mangold, Versuchsfeld Rothamsted. Versuchsfläche 40,40 mit 200 Teilstücken zu 20,2 qm (9,2×2,2 m). Das Feld ist weitgehend gleichmäßig, obwohl seine Qualität von Nord nach Süd abnimmt, wie aus den Mittelwerten zu ersehen ist. Trans: 5. Mercer Hall (71), Mangold, Rothamsted experimental field. Test area 40.40 200 sections 20.2 square meters (9.2 × 2.2 m). field largely uniform, although quality decreases north south, can seen averages. Mercer und Hall (71), Winterweizen, Versuchsfeld Rothamsted. Versuchsfläche 40,45 mit 500 Teilstücken zu 8,09 qm. Die Fläche ist weniger aus geglichen als jene von Versuch 5. Trans: 6. Mercer Hall (71), winter wheat, Rothamsted experimental field. Test area 40.45 500 sections 8.09 square meters. area less uniform experiment 5. Montgomery (86), Winterweizen, Versuchsfeld der Versuchsstation Nebraska, U. S. . Versuchsfläche 6 30 qm mit 224 Teilstücken zu 2,81 qm. Das Feld wird von unten nach oben hin besser, ist auch der rechten Hälfte ertragreicher als der linken, entspricht aber einem sehr ausgeglichenen Versuchsfelde der Praxis. Trans: 7. Montgomery (86), winter wheat, experimental field Nebraska Experimental Station, USA. Experimental area 6 30 square meters 224 sections 2.81 square meters. field gets better bottom top, also productive right half left, corresponds uniform experimental field practice. Tulaikow (131), Winterweizen, Versuchsfeld der landwirtschaftlichen Versuchsstation Besentschuk. Versuchsfläche 10 92 qm mit 240 Teilstücken zu 4,55 qm. Diese Fläche ist mäßig ausgeglichen. Translated: Tulaikow (131), Winter wheat, experimental field Besenchuk Agricultural Experimental Station. Test area 10 x 92 sqm 240 plots 4.55 sqm. area moderately uniform. Neyman cites: Tulaikow, Russian Journ Exp Agric 14 (1913). Number 2, p. 113 Tulaikow (131), Sommerweizen, genau wie bei Winterweizen, jedoch erscheint das Bild gleichmäßiger als jenes von Versuch 8. Trans: 9. Tulaikow (131), spring wheat, winter wheat, picture appears uniform experiment 8. Jegerow (52), Hafer, Versuchsfeld der landwirtschaftlichen Versuchsstation Saumy (Gouvernement Charkow), Versuchsfläche 10 92 qm mit 240 Teilstücken zu 4,55 qm. Sehr gleichmäßiges Versuchsfeld. Translated: 10. Jegerow (52), oats, experimental field Saumy agricultural experimental station (Kharkov Governorate), experimental area 10 x 92 sqm 240 sections 4.55 sqm. even test field. Larsen (49), Timothyheu, Versuchsfläche 60 mit 240 Teilstücken zu 25 qm. Die Versuchsfläche wird von Ost nach West langsam etwas besser, und von Süd nach Nord nimmt die Ertragsfähigkeit ziemlich stark ab (-Streifen 1496 kg, B-Streifen 1449 kg, C-Streifen 1326 kg). Trans: Timothy hay, test area 60 240 sections 25 square meters. test area slowly improves slightly east west, south north yield decreases quite sharply (strip 1496 kg, B strip 1449 kg, C strip 1326 kg). Lehmann (61), Reis, Versuchsfeld Hebbal bei Benjalore, Indien. Versuchsfläche 68,68 mit 34 Teilstücken zu 20,2 qm, durch vier Jahre (1905-1908) fortgeführt. Dieser Versuch ist seines geringen Umfanges wegen nicht für alle zu handelnden Fragen brauchbar. Trans: 12. Lehmann (61), Reis, Hebbal experimental field near Benjalore, India. Experimental area 68.68 34 sections 20.2 square meters, continued four years (1905-1908). small scope, experiment used questions addressed. Lehmann (61), Hirse, Versuchsfeld Hebbal bei Benjalore. Versuchsfläche 21 21 qm mit 105 Teilstüden zu 20,2 qm, durch drei Jahre (1905-1907) fortgesezt, jedoch sind die Teilstücke durch Gebäude getrennt. Dieses Versuchsfeld ist aus kleinbäuerlichem Besit zusammengekauft, also früheren Jahren verschieden arbeitet und bestellt worden, es ist die ungleichmäßigste Fläche von allen 13 Versuchen. Trans: 13. Lehmann (61), millet, Hebbal test field near Benjalore. Experimental area 21 x 21 sqm 105 sections 20.2 sqm, continued three years (1905-1907), sections separated buildings. experimental field purchased small farmers property therefore worked cultivated differently previous years. uneven area 13 experiments. Die Originalerntezahlen finden sich den Tabellen des Anhanges, die die Lage der Teilstücke erkennen lassen. Es ließ sich infolge verschiedener Anlage der Versuche nicht ermöglichen, daß alle Versuche einheitlicher Anordnung verrechnet wurden. Die Ergebnisse sind übereinstimmend, daß die gezogenen Schlußfolgerungen große Sicherheit besigen. Trans: original harvest figures can found tables appendix, show location cuts. Due different design experiments, possible experiments calculated uniform manner. results consistent conclusions drawn certain. Untersuchungen über Beeinflussung der Genauigkeit. Trans: Studies influence accuracy. Hand der bezeichneten 13 Versuche ich nun im einzelnen nachweisen, welche Umstände und welchem Maße diese auf die Genauigkeit der Versuchsergeb nisse einwirken. Es können jeweils nur die Endzahlen der mühsamen und sehr umfangreichen Berechnungen gegeben werden, die ich selbst ausgeführt habe. Trans: Using 13 experiments mentioned, now want demonstrate detail circumstances extent influence accuracy test results. final numbers laborious extensive calculations carried can given.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-4","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Ehrenberg, P. 1920. Versuch eines Beweises für die Anwendbarkeit der Wahrscheinlichkeitsrechnung bei Feldversuchen. Die Landwirtschaflichen versuchs-stationen, 95, 157-294 https://archive.org/details/dielandwirtschaf9519reun/page/156/ https://www.google.com/books/edition/Die_Landwirtschaftlichen_Versuchs_Statio/h9FGAAAAYAAJ?hl=en&gbpv=1&dq=bolatitz+jegorow&pg=RA1-PA160&printsec=frontcover Extensive datasets given 1 row text per plot! , field layout given??? Ehrenberg, Mitteilungen der Landwirtschaflichen Institute der Kgl. Universitat Breslau, 6, 21 (1910). Jegorow Tulaikow Lehmann ragi Lehmann Lehmann 1907 Montgomery Larsen Page 288-290 summarizes many studies refers paper: Landw. Versuchs-Stationen Bd. 87 (1915), S. 34. https://www.google.com/books/edition/Die_Landwirthschaftlichen_Versuchs_Stati/qFPbIBaHZKUC?hl=en&gbpv=1 # ————————————————————————— Vageler, H. (1919) Beziehung zwischen Parzellengrösse und Fehler der Einzelbeobachtung bei Felderversuchen (Relation size plats error detached observations field experiments). Journal für Landwirtschaft, 67, 97-108. https://www.google.com/books/edition/Journal_f%C3%BCr_Landwirtschaft/JHAZAQAAIAAJ?hl=en&gbpv=1&dq=Vageler+Beziehung+zwischen+parzellengr%C3%B6sse&pg=PA107&printsec=frontcover 128 plots roggen (rye) hafer (oats) kartoffeln (potatoes) wruken (rape/rutabega/kohlrabi?) layout? : https://archive.org/details/journalfurlandwi6719unse/page/96/mode/2up?q=ehrenberg+%22versuch+eines+beweises%22","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-5","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Gorski Mentioned Neyman (1935). Gorski, M. Stefaniow, M. (1917). Die Anwendbarkeit der Wahrscheinlichkeits-rechnung bei Feldversuchen. Die Landwirtschaflichen Versuchsstationen, 90, 225-240. https://babel.hathitrust.org/cgi/pt?id=coo.31924078248048&seq=241&q1=gorski Two experiments given, 200 300 plots, layout? Gorski & Stefaniow. (1917) Zastosowanie rachunku prawdopodobienstwa doswiadczen polowych Roczniki Nauk Rolniczych. searched google books, hathi, archive Roczniki journal https://catalog.hathitrust.org/Record/007913696 11-12 1924 17-18 1927 1917 vol 11 1923 vol 9 1930 vol 24 See also Cochran, # 52","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-6","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Geisler 1958. Downloaded. Uniformity trial (?) page 269.","code":""},{"path":"/authors.html","id":null,"dir":"","previous_headings":"","what":"Authors","title":"Authors and Citation","text":"Kevin Wright. Author, maintainer, copyright holder.","code":""},{"path":"/authors.html","id":"citation","dir":"","previous_headings":"","what":"Citation","title":"Authors and Citation","text":"Wright K (2024). agridat: Agricultural Datasets. R package version 1.23, https://kwstat.github.io/agridat/.","code":"@Manual{,   title = {agridat: Agricultural Datasets},   author = {Kevin Wright},   year = {2024},   note = {R package version 1.23},   url = {https://kwstat.github.io/agridat/}, }"},{"path":"/index.html","id":"agridat-","dir":"","previous_headings":"","what":"Agricultural Datasets","title":"Agricultural Datasets","text":"Homepage: https://kwstat.github.io/agridat Repository: https://github.com/kwstat/agridat agridat package provides extensive collection datasets agricultural experiments. datasets come books, papers, websites related agriculture. Example graphics analyses included. Data come small-plot trials, multi-environment trials, uniformity trials, yield monitors, . package tries make data FAIR: Findable, Accessible, Interoperable, Reusable.","code":""},{"path":"/index.html","id":"key-features","dir":"","previous_headings":"","what":"Key features","title":"Agricultural Datasets","text":"Thorough documentation. Examples (almost) every dataset.","code":""},{"path":"/index.html","id":"installation","dir":"","previous_headings":"","what":"Installation","title":"Agricultural Datasets","text":"","code":"# Install the released version from CRAN: install.packages(\"agridat\")  # Install the development version from GitHub: install.packages(\"devtools\") devtools::install_github(\"kwstat/agridat\")"},{"path":"/index.html","id":"usage","dir":"","previous_headings":"","what":"Usage","title":"Agricultural Datasets","text":"","code":"library(agridat) ?agridat # list all datasets with keywords"},{"path":"/notes_agridat.html","id":null,"dir":"","previous_headings":"","what":"License note","title":"License note","text":"Substantial effort made contact authors papers published within past decades secure permission use data package. U.S., raw data generally subject copyright. See   discussion. Data produced work United States government (including U.S. Department Agriculture) subject copyright. Creative Commons licenses can apply  database, factual data.","code":""},{"path":"/notes_agridat.html","id":"cochran-uniformity-done","dir":"","previous_headings":"","what":"Cochran uniformity done","title":"License note","text":"evans.sugarcane.uniformity goulden.barley.uniformity ducker.groundnut.uniformity immer.sugarbeet.uniformity (1931) mckinstry.cotton.uniformity saunders.maize.uniformity smith.wheat.uniformity data made available special help staff Rothamsted Research Library. Murray, E. K. S. (1934). value uniformity trial field experimentation rubber. Journal Agricultural Science, 24(2), 177-184. https://doi.org/10.1017/s0021859600006572 Reviewed. used. 2 years 5x5 grid rubber trees. Based data archived Rothamsted, used time.","code":""},{"path":"/notes_agridat.html","id":"folder-1-genstat-data","dir":"","previous_headings":"","what":"Folder 1 Genstat data","title":"License note","text":"101 # 1925-1934 single rows, series E/F 102 # 1925-1934 single rows, series G 103_goulden_barley # done Grown Dominion, 1931 104_beckett_coconut # 1919-1928, 22 plots, nuts per plot. Cochran paper #17 105_panse_cotton # done (see also 509) 106_mckinstry_cotton # done Gatooma 480 plots 107_saunders_maize # done Maize, Potchefstroom 1929-30 108 # Field B2a, B5b 109_saunders_maize # done Maize, Potchefstroom 1928-1929 110_immer_sugarbeet # done U Minn 1931 111_evans_sugarcane # done Squared values 112_sayer_sugarcane # done Harpr Jhili 113_christidis_wheat # done 114_smith_wheat # done Fairfield Smith data","code":""},{"path":"/notes_agridat.html","id":"folder-2-data-received-since-publication","dir":"","previous_headings":"","what":"Folder 2 Data received since publication","title":"License note","text":"201 # cotton Wad Medani, Sudan 202 # Wad Medani, Cotton 24x8=192 203 # 3x20, 1935-1936, weight rotl 204 # Letter Parish Fisher, 205 # Oats 1923, Sudan Grass 1923, Wheat 1922 (10x26=260 plots) 206 # done hutchinson.cotton 207 # done Letter Finney Kilby 1943 208_ducker_groundnut # done Letter Killby Fisher, Ducker groundnut data 209 # 1938 Summerby Cochran, Oats, 1921 3x33, Wheat todo. Data. pdf. 210 # 1937 Letter Summerby Cochran, Cochran Summerby 211 # 1943 Letter Finney Wadley. Thanks data. 212 # 1934 Letter Wadley Finney. Ribes data. 213 # ignore China, 1x16 214 # omit - clove trees 600, 5 years, coordinates, East Africa 215 # omit - clove tree part 2 216 # omit - wireworm traps, plant trial 217 # LeClerg field expt 1937-1938 sugar beet U Minn 218 # LeClerg greenhouse 1933 219 # 1939 letter LeClerg Cochran, Narain Cochran, Cochran Westover, Eden Cochran","code":""},{"path":"/notes_agridat.html","id":"folder-3","dir":"","previous_headings":"","what":"Folder 3","title":"License note","text":"301_day_table # done data.","code":""},{"path":"/notes_agridat.html","id":"folder-4-uniformity-trials-1936-1938","dir":"","previous_headings":"","what":"Folder 4 Uniformity trials 1936-1938","title":"License note","text":"folder contains correspondence 401 402_pound 403 cheesman christidis collinson collison 404 405_day # Done. demandt vandyk 406 407 408 posthumus 409_konigsberger demandt trials 410_demandt $ done 411 hutchinson immer look parnell 412 413 kirk parnell macdonald 414 metzger parker pound 415 pound reynolds(cotton) richardson 416_saunders # done 417_saunders sayer swanson 418_swanson thompson 419 thompson notes 420 day westover wilcox","code":""},{"path":"/notes_agridat.html","id":"folder-5-uniformity-data","dir":"","previous_headings":"","what":"Folder 5 Uniformity data","title":"License note","text":"501_metzger # multi-year series 502_kansas 503 504_goulden_barley # done goulden.barley.uniformity 505_beckett_coconut # multi-year, Cochran #17 506 507_coffee # coffee 1934-1939, Cochran #18 508_mckinstry_cotton # done mckinstry.cotton.uniformity (correspondence, hand-written) 509_panse_cotton # done panse.cotton.uniformity (see also 109) 510_christidis_wheat # done christidis.wheat.uniformity 511_sayer_sugarcane # done sayer.sugarcane.uniformity 1932, 48 rows, 20 columns 513_hastings_oats_1911 # 514_immer_sugarbeet # done. 60 row, 10 col, 2nd year data 515_sugarcane # barbados sugarcane 516_macdonald_cotton # field B2a B5b. See folder 1, file 8 517_rothamsted 518_saunders_maize_28_29 # done potchefstroom 519_saunders_maize_29_30 # done potchefstroom","code":""},{"path":"/notes_agridat.html","id":"folder-6-ovs-heath-cotton-uniformity-1934-1935","dir":"","previous_headings":"","what":"Folder 6 OVS Heath cotton uniformity 1934-1935","title":"License note","text":"Decided use data. 2 cut dates. data dry matter highly variable. field notes bit cryptic suggest lack uniformity plants handled (cut morning, afternoon, etc). 601 7/1 pt 2, copy 1, row 1-84, col k-u 602 7/1 pt 2, copy 2, row 1-84, col k-u 603 4/2 pt 1, copy2, row 1-84, col -k 604 4/2 pt 1, copy1, row 1-84, col -k 605 4/2 pt 2, copy2, row 1-84, col l-v 606 7/1 pt 1, copy 2, row 1-84, col za-j 607 experiment details 608 7/1 pt 1, copy 1, row 1-84, col za-j 609 4/2 pt 2, copy1, row 1-84, col l-v","code":""},{"path":"/notes_agridat.html","id":"folder-7-yield-of-grain-per-foot-fairfield-smith","dir":"","previous_headings":"","what":"Folder 7 Yield of grain per foot, Fairfield smith","title":"License note","text":"701_smith_correspondence # done 702_smith_reference # done 703_smith_ears_copy_B # done 704_smith_grain_copy_B # done 705_smith_grain_copy_A # done 707_smith_ears_copy_A # done","code":""},{"path":"/notes_agridat.html","id":"folder-8-catalog-of-uniformity-data","dir":"","previous_headings":"","what":"Folder 8 Catalog of uniformity data","title":"License note","text":"801_cochran_notes_1 802_cochran_notes_2 803_cochran_notes_3 804_cochran_notes_4 800_cochran_notes_0 805_evans_sugarcane_letter # done evans.sugarcane.uniformity 806_evans_sugarcane_data # done evans.sugarcane.uniformity","code":""},{"path":"/notes_agridat.html","id":"folder-9-demandt-1931","dir":"","previous_headings":"","what":"Folder 9 Demandt 1931","title":"License note","text":"Decided use data. little contextual information data. 901_demandt_diagram 902_demandt_data","code":""},{"path":"/notes_agridat.html","id":"to-do","dir":"","previous_headings":"","what":"To do","title":"License note","text":"change theobald.covariate JAGS brms? brms examples crowder.seeds Figure best way use jags JAGS code edwards.oats JAGS code lee.potatoblight JAGS code theobald.barley JAGS code besag.elbatan Note: R_MAX_NUM_DLLS=150 Rcmd check –run-dontrun release devtools::run_examples(run=FALSE, start=“butron.maize”) build_site(lazy=TRUE, run=TRUE) use Roxygen document data, complain data/*.txt files error messages like: Error: ‘uscrime’ exported object ‘namespace:agridat’ document lists notes data sources searched additional sources agricultural data. Although .md file, formatting best viewed plain text mode. Henry Wallace archive Univ Iowa Library http://www.lib.uiowa.edu/sc/location--hours/ Henry Wallace research papers http://aspace.lib.uiowa.edu/repositories/2/archival_objects/400608 500 Ear experiment. Might data “corn judge’s mind” paper http://aspace.lib.uiowa.edu/repositories/2/archival_objects/400615","code":""},{"path":"/notes_agridat.html","id":"wanted","dir":"","previous_headings":"","what":"wanted","title":"License note","text":"Yield-monitor data split-planter field Yield-monitor data strip trial. Jose Crossa papers http://repository.cimmyt.org/xmlui/handle/10883/1/browse?value=Crossa,%20J.&type=author Meta-r http://repository.cimmyt.org/xmlui/handle/10883/4130 Data http://repository.cimmyt.org/xmlui/handle/10883/4036 http://repository.cimmyt.org/xmlui/handle/10883/2976 http://repository.cimmyt.org/xmlui/handle/10883/1380 http://repository.cimmyt.org/xmlui/handle/10883/4128 http://repository.cimmyt.org/xmlui/handle/10883/4290 Review meta-analyses agronomy http://www6.versailles-grignon.inra.fr/agronomie/Meta-analysis--agronomy/References","code":""},{"path":"/notes_agridat.html","id":"papers","dir":"","previous_headings":"","what":"Papers","title":"License note","text":"Biplot/StdErr/ VanEeuwijk 1993 - Incorporating env info Biplot Bartkowiak GxE table GE folder: Crossa 1997","code":""},{"path":"/notes_agridat.html","id":"malosetti-2013","dir":"","previous_headings":"","what":"Malosetti 2013","title":"License note","text":"F2 data. Folder: GE http://www.frontiersin.org/Plant_Physiology/10.3389/fphys.2013.00044/abstract CC license:","code":""},{"path":"/notes_agridat.html","id":"perez","dir":"","previous_headings":"","what":"Perez","title":"License note","text":"Comparison Linear Non-parametric Regression Models Genome-Enabled Prediction Wheat https://www.scienceopen.com/document/vid/4017fb51-381c-4374-93aa-608423df4004;jsessionid=0TLjjSbaooSUk1y3JKd4nUeb.master:-app1-prd Data: http://www.g3journal.org/content/suppl/2012/12/05/2.12.1595.DC1 content CC license","code":""},{"path":"/notes_agridat.html","id":"extension","dir":"","previous_headings":"","what":"Extension","title":"License note","text":"https://plant-breeding-genomics.extension.org/plant-breeding--genomics-learning-lessons https://plant-breeding-genomics.extension.org/estimating-heritability--blups--traits-using-tomato-phenotypic-data/ https://plant-breeding-genomics.extension.org/genomic-relationships--gblup <— todo review https://plant-breeding-genomics.extension.org/rrblup-package--r--genomewide-selection/","code":""},{"path":[]},{"path":[]},{"path":[]},{"path":"/notes_agridat.html","id":"agronomy-journal","dir":"","previous_headings":"","what":"Agronomy Journal","title":"License note","text":"Skimmed Vol 1","code":""},{"path":"/notes_agridat.html","id":"the-american-statistician","dir":"","previous_headings":"","what":"The American Statistician","title":"License note","text":"Vol 1-13","code":""},{"path":"/notes_agridat.html","id":"biometrics-skimmed-1947-2006","dir":"","previous_headings":"","what":"Biometrics. Skimmed 1947-2006","title":"License note","text":"http://www.jstor.org/action/showPublication?journalCode=biometrics","code":""},{"path":"/notes_agridat.html","id":"the-empire-journal-of-experimental-agriculture","dir":"","previous_headings":"","what":"The Empire Journal of Experimental Agriculture","title":"License note","text":"http://archive.org Vol 3-5, 23-24 26","code":""},{"path":"/notes_agridat.html","id":"field-crops-research","dir":"","previous_headings":"","what":"Field Crops Research.","title":"License note","text":"http://www.sciencedirect.com/science/journal/03784290/157 Vol 1-40","code":""},{"path":"/notes_agridat.html","id":"iasri-newsletters","dir":"","previous_headings":"","what":"IASRI newsletters","title":"License note","text":"http://www.iasri.res./NewsLetters/nl.HTM","code":""},{"path":"/notes_agridat.html","id":"indian-journal-of-agricultural-science","dir":"","previous_headings":"","what":"Indian Journal of Agricultural Science","title":"License note","text":"","code":"Vol 1. Vol 2. Vol 3. https://archive.org/details/in.ernet.dli.2015.271738/page/n653/mode/2up   544 5 varieties, 2 blocks, 4 reps/block Vol 4.  Vol 5.   579. agridat::bose.multi.uniformity Vol 6.  https://archive.org/details/in.ernet.dli.2015.271737   34. 4-way factorial (3 gen, 5 date, 3 spacing, 3 pop) non-contiguous sub-plots. agridat::chakravertti.factorial   460. agridat::kulkarni.sorghum.uniformity   917. agridat::sayer.sugarcane.uniformity Vol 9. Vol 10. Vol 11.  Vol 12.    240. Wheat uniformity trial. agridat::iyer.wheat.uniformity Vol 14. Vol 16. Vol 17. Vol 19."},{"path":"/notes_agridat.html","id":"jabes","dir":"","previous_headings":"","what":"JABES","title":"License note","text":"Vol 6.","code":""},{"path":"/notes_agridat.html","id":"journal-of-the-american-society-of-agronomy","dir":"","previous_headings":"","what":"Journal of the American Society of Agronomy","title":"License note","text":"Vol 23.","code":""},{"path":"/notes_agridat.html","id":"journal-of-the-indian-society-of-agricultural-statistics","dir":"","previous_headings":"","what":"Journal of the Indian Society of Agricultural Statistics","title":"License note","text":"http://www.isas.org./jsp/onlinejournal.jsp Skimmed: Vol 50-56","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"jrssb-1940-1997","dir":"","previous_headings":"","what":"JRSSB 1940-1997","title":"License note","text":"http://www.jstor.org/action/showPublication?journalCode=jroyastatsocise4 Datasets 1998-2015 http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1467-9868/homepage/seriesb_datasets.htm http://onlinelibrary.wiley.com/journal/10.1111/%28ISSN%291467-985X/homepage/datasets_all_series.htm","code":""},{"path":"/notes_agridat.html","id":"jrssc-applied-statistics-datasets","dir":"","previous_headings":"","what":"JRSSC Applied Statistics datasets","title":"License note","text":"http://onlinelibrary.wiley.com/journal/10.1111/%28ISSN%291467-985X/homepage/datasets_all_series.htm 1998-2015","code":""},{"path":"/notes_agridat.html","id":"tidsskrift-for-planteavl-1895-1992","dir":"","previous_headings":"","what":"Tidsskrift for Planteavl 1895-1992","title":"License note","text":"http://dca.au.dk/publikationer/historiske/planteavl/","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"nebraska-agricultural-experiment-station-annual-report","dir":"","previous_headings":"","what":"Nebraska Agricultural Experiment Station Annual Report","title":"License note","text":"Vol 19-24, 1906-1911 https://books.google.com/books?id=HBlJAAAAMAAJ Vol 25, 1912 https://books.google.com/books?id=M-5BAQAAMAAJ","code":""},{"path":"/notes_agridat.html","id":"iowa-state-university-library-special-collections","dir":"","previous_headings":"","what":"Iowa State University Library Special Collections","title":"License note","text":"Helen Elizabeth Conners (1951). Field plot techniques sweet potatoes obtained uniformity trial data. Master’s Thesis. data given. Robert LeRoy Plaisted (1954). Field plot techniques estimating onion yields. Master’s Thesis. data given. Michael Holle. 1960. Plot technique field evaluation three characters lima bean. Master’s Thesis. data given. Howard Lewis Taylor (1951). effect plot shape experimental error. Master’s Thesis. data given. Used data corn uniformity trial, oats uniformity, data Fairfield Smith. Smaller experimental errors found long narrow plots.","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"jack-weiss","dir":"","previous_headings":"","what":"Jack Weiss","title":"License note","text":"Ecol 563 Stat Meth Ecology http://www.unc.edu/courses/2010fall/ecol/563/001/ Env Studies 562 Stat Envt Science http://www.unc.edu/courses/2010spring/ecol/562/001/ Ecol 145 http://www.unc.edu/courses/2006spring/ecol/145/001/docs/lectures.htm","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"applied-statistics-in-agriculture","dir":"","previous_headings":"","what":"Applied Statistics in Agriculture","title":"License note","text":"http://newprairiepress.org/agstatconference/ 1989-2014","code":""},{"path":"/notes_agridat.html","id":"computers-and-electronics-in-agriculture","dir":"","previous_headings":"","what":"Computers and Electronics in Agriculture.","title":"License note","text":"http://www.sciencedirect.com/science/journal/01681699/103 Vol 1-110 180-191","code":""},{"path":"/notes_agridat.html","id":"journal-of-agricultural-science","dir":"","previous_headings":"","what":"Journal of Agricultural Science","title":"License note","text":"https://www.cambridge.org/core/journals/journal--agricultural-science/-issues 1900-2016","code":""},{"path":"/notes_agridat.html","id":"experimental-agriculture","dir":"","previous_headings":"","what":"Experimental Agriculture","title":"License note","text":"https://www.cambridge.org/core/journals/experimental-agriculture 1965-2016","code":""},{"path":"/notes_agridat.html","id":"sas-global-forum","dir":"","previous_headings":"","what":"SAS Global Forum","title":"License note","text":"http://support.sas.com/events/sasglobalforum/previous/online.html 22-31, 2007-2013","code":""},{"path":"/reference/aastveit.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Barley heights and environmental covariates in Norway — aastveit.barley","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"Average height 15 genotypes barley 9 years.   Also 19 covariates 9 years.","code":""},{"path":"/reference/aastveit.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"","code":"data(\"aastveit.barley.covs\") data(\"aastveit.barley.height\")"},{"path":"/reference/aastveit.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"'aastveit.barley.covs' dataframe 9 observations following 20 variables. year year R1 avg rainfall (mm/day) period 1 R2 avg rainfall (mm/day) period 2 R3 avg rainfall (mm/day) period 3 R4 avg rainfall (mm/day) period 4 R5 avg rainfall (mm/day) period 5 R6 avg rainfall (mm/day) period 6 S1 daily solar radiation (ca/cm^2) period 1 S2 daily solar radiation (ca/cm^2) period 2 S3 daily solar radiation (ca/cm^2) period 3 S4 daily solar radiation (ca/cm^2) period 4 S5 daily solar radiation (ca/cm^2) period 5 S6 daily solar radiation (ca/cm^2) period 6 ST sowing time, measured days April 1 T1 avg temp (deg Celsius) period 1 T2 avg temp (deg Celsius) period 2 T3 avg temp (deg Celsius) period 3 T4 avg temp (deg Celsius) period 4 T5 avg temp (deg Celsius) period 5 T6 avg temp (deg Celsius) period 6 'aastveit.barley.height' dataframe 135 observations   following 3 variables. year year, 9 years spanning 1974 1982 gen genotype, 15 levels height height (cm)","code":""},{"path":"/reference/aastveit.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"Experiments conducted , Norway. height dataframe contains average plant height (cm) 15 varieties   barley 9 years. growth season year divided eight periods   sowing harvest.  plant stop growing 20 days   ear emergence, first 6 periods included . Used permission Harald Martens.","code":""},{"path":"/reference/aastveit.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"Aastveit, . H. Martens, H. (1986).   ANOVA interactions interpreted partial least squares regression.   Biometrics, 42, 829--844.   https://doi.org/10.2307/2530697","code":""},{"path":"/reference/aastveit.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"J. Chadoeuf J. B. Denis (1991).   Asymptotic variances multiplicative interaction model.   J. App. Stat., 18, 331-353.   https://doi.org/10.1080/02664769100000032","code":""},{"path":"/reference/aastveit.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"","code":"if (FALSE) {  library(agridat) data(\"aastveit.barley.covs\") data(\"aastveit.barley.height\")  libs(reshape2, pls)      # First, PCA of each matrix separately    Z <- acast(aastveit.barley.height, year ~ gen, value.var=\"height\")   Z <- sweep(Z, 1, rowMeans(Z))   Z <- sweep(Z, 2, colMeans(Z)) # Double-centered   sum(Z^2)*4 # Total SS = 10165   sv <- svd(Z)$d   round(100 * sv^2/sum(sv^2),1) # Prop of variance each axis   # Aastveit Figure 1.  PCA of height   biplot(prcomp(Z),          main=\"aastveit.barley - height\", cex=0.5)      U <- aastveit.barley.covs   rownames(U) <- U$year   U$year <- NULL   U <- scale(U) # Standardized covariates   sv <- svd(U)$d   # Proportion of variance on each axis   round(100 * sv^2/sum(sv^2),1)    # Now, PLS relating the two matrices   m1 <- plsr(Z~U)   loadings(m1)   # Aastveit Fig 2a (genotypes), but rotated differently   biplot(m1, which=\"y\", var.axes=TRUE)   # Fig 2b, 2c (not rotated)   biplot(m1, which=\"x\", var.axes=TRUE)    # Adapted from section 7.4 of Turner & Firth,   # \"Generalized nonlinear models in R: An overview of the gnm package\"   # who in turn reproduce the analysis of Chadoeuf & Denis (1991),   # \"Asymptotic variances for the multiplicative interaction model\"    libs(gnm)   dath <- aastveit.barley.height   dath$year = factor(dath$year)    set.seed(42)   m2 <- gnm(height ~ year + gen + Mult(year, gen), data = dath)   # Turner: \"To obtain parameterization of equation 1, in which sig_k is the   # singular value for component k, the row and column scores must be constrained   # so that the scores sum to zero and the squared scores sum to one.   # These contrasts can be obtained using getContrasts\"   gamma <- getContrasts(m2, pickCoef(m2, \"[.]y\"),                         ref = \"mean\", scaleWeights = \"unit\")   delta <- getContrasts(m2, pickCoef(m2, \"[.]g\"),                         ref = \"mean\", scaleWeights = \"unit\")   # estimate & std err   gamma <- gamma$qvframe   delta <- delta$qvframe   # change sign of estimate   gamma[,1] <- -1 * gamma[,1]   delta[,1] <- -1 * delta[,1]   # conf limits based on asymptotic normality, Chadoeuf table 8, p. 350,    round(cbind(gamma[,1], gamma[, 1] +                            outer(gamma[, 2], c(-1.96, 1.96))) ,3)     round(cbind(delta[,1], delta[, 1] +                            outer(delta[, 2], c(-1.96, 1.96))) ,3) }"},{"path":"/reference/acorsi.grayleafspot.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"Multi-environment trial evaluating 36 maize genotypes 9 locations","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"","code":"data(\"acorsi.grayleafspot\")"},{"path":"/reference/acorsi.grayleafspot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"data frame 324 observations following 3 variables. gen genotype, 36 levels env environment, 9 levels rep replicate, 2 levels y grey leaf spot severity","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"Experiments conducted 9 environments Brazil 2010-11.    location RCB 2 reps. response variable percentage leaf area affected gray   leaf spot within experimental unit (plot). Acorsi et al. use data illustrate fitting generalized   AMMI model non-normal data.","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"C. R. L. Acorsi, T. . Guedes, M. M. D. Coan, R. J. B. Pinto,   C. . Scapim, C. . P. Pacheco, P. E. O. Guimaraes, C. R. Casela. (2016).   Applying generalized additive main effects multiplicative   interaction model analysis maize genotypes resistant grey leaf spot.   Journal Agricultural Science.   https://doi.org/10.1017/S0021859616001015 Electronic data R code kindly provided Marlon Coan.","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"None","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"","code":"if (FALSE) {    library(agridat)   data(acorsi.grayleafspot)   dat <- acorsi.grayleafspot      # Acorsi figure 2. Note: Acorsi used cell means   op <- par(mfrow=c(2,1), mar=c(5,4,3,2))   libs(lattice)   boxplot(y ~ env, dat, las=2,           xlab=\"environment\", ylab=\"GLS severity\")   title(\"acorsi.grayleafspot\")   boxplot(y ~ gen, dat, las=2,           xlab=\"genotype\", ylab=\"GLS severity\")   par(op)      # GLM models      # glm main-effects model with logit u(1-u) and wedderburn u^2(1-u)^2   # variance functions   # glm1 <- glm(y~ env/rep + gen + env, data=dat, family=quasibinomial)   # glm2 <- glm(y~ env/rep + gen + env, data=dat, family=wedderburn)   # plot(glm2, which=1); plot(glm2, which=2)      # GAMMI models of Acorsi. See also section 7.4 of Turner   # \"Generalized nonlinear models in R: An overview of the gnm package\"      # full gnm model with wedderburn, seems to work   libs(gnm)   set.seed(1)   gnm1 <- gnm(y ~  env/rep + env + gen + instances(Mult(env,gen),2),               data=dat,               family=wedderburn, iterMax =800)   deviance(gnm1) # 433.8548   # summary(gnm1)   # anova(gnm1, test =\"F\")  # anodev, Acorsi table 4   ##                          Df Deviance Resid. Df Resid. Dev       F    Pr(>F)       ## NULL                                       647     3355.5                         ## env                       8  1045.09       639     2310.4 68.4696 < 2.2e-16 ***   ## env:rep                   9    12.33       630     2298.1  0.7183    0.6923       ## gen                      35  1176.23       595     1121.9 17.6142 < 2.2e-16 ***   ## Mult(env, gen, inst = 1) 42   375.94       553      745.9  4.6915 < 2.2e-16 ***   ## Mult(env, gen, inst = 2) 40   312.06       513      433.9  4.0889 3.712e-14 ***     # maybe better, start simple and build up the model   gnm2a <- gnm(y ~  env/rep + env + gen,                data=dat,                family=wedderburn, iterMax =800)    # add first interaction term   res2a <- residSVD(gnm2a, env, gen, 2)   gnm2b <- update(gnm2a, . ~ . + Mult(env,gen,inst=1),                   start = c(coef(gnm2a), res2a[, 1]))   deviance(gnm2b) # 692.19    # add second interaction term   res2b <- residSVD(gnm2b, env, gen, 2)   gnm2c <- update(gnm2b, . ~ . + Mult(env,gen,inst=1) + Mult(env,gen,inst=2),                   start = c(coef(gnm2a), res2a[, 1], res2b[,1]))   deviance(gnm2c) # 433.8548   # anova(gnm2c) # weird error message    # note, to build the ammi biplot, use the first column of res2a to get   # axis 1, and the FIRST column of res2b to get axis 2. Slightly confusing   emat <- cbind(res2a[1:9, 1], res2b[1:9, 1])   rownames(emat) <- gsub(\"fac1.\", \"\", rownames(emat))      gmat <- cbind(res2a[10:45, 1], res2b[10:45, 1])   rownames(gmat) <- gsub(\"fac2.\", \"\", rownames(gmat))    # match Acorsi figure 4   biplot(gmat, emat, xlim=c(-2.2, 2.2), ylim=c(-2.2, 2.2), expand=2, cex=0.5,          xlab=\"Axis 1\", ylab=\"Axis 2\",          main=\"acorsi.grayleafspot - GAMMI biplot\") }"},{"path":"/reference/adugna.sorghum.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"Multi-environment trial sorghum 3 locations across 5 years","code":""},{"path":"/reference/adugna.sorghum.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"data frame 289 observations following 6 variables. gen genotype, 28 levels trial trial, 2 levels env environment, 13 levels yield yield kg/ha year year, 2001-2005 loc location, 3 levels","code":""},{"path":"/reference/adugna.sorghum.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"Sorghum yields 3 locations across 5 years.   trials carried three locations dry, hot lowlands   Ethiopia: Melkassa (39 deg 21 min E, 8 deg 24 min N) Mieso (39 deg 22 min E, 8 deg 41 min N) Kobo (39 deg 37 min E, 12 deg 09 min N) Trial 1 14 hybrids one open-pollinated variety. Trial 2 12 experimental lines. Used permission Asfaw Adugna.","code":""},{"path":"/reference/adugna.sorghum.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"Asfaw Adugna (2008).   Assessment yield stability sorghum using   univariate multivariate statistical approaches.   Hereditas, 145, 28--37.     https://doi.org/10.1111/j.0018-0661.2008.2023.x","code":""},{"path":"/reference/adugna.sorghum.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"","code":"if (FALSE) {  library(agridat) data(adugna.sorghum) dat <- adugna.sorghum  libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield ~ env*gen, data=dat, main=\"adugna.sorghum gxe heatmap\",           col.regions=redblue)  # Genotype means match Adugna tapply(dat$yield, dat$gen, mean)  # CV for each genotype.  G1..G15 match, except for G2. # The table in Adugna scrambles the means for G16..G28 libs(reshape2) mat <- acast(dat, gen~env,  value.var='yield') round(sqrt(apply(mat, 1, var, na.rm=TRUE)) / apply(mat, 1, mean, na.rm=TRUE) * 100,2)  # Shukla stability.  G1..G15 match Adugna.  Can't match G16..G28. dat1 <- droplevels(subset(dat, trial==\"T1\")) mat1 <- acast(dat1, gen~env,  value.var='yield') w <- mat1; k=15; n=8  # k=p gen, n=q env w <- sweep(w, 1, rowMeans(mat1, na.rm=TRUE)) w <- sweep(w, 2, colMeans(mat1, na.rm=TRUE)) w <- w + mean(mat1, na.rm=TRUE) w <- rowSums(w^2, na.rm=TRUE) sig2 <- k*w/((k-2)*(n-1)) - sum(w)/((k-1)*(k-2)*(n-1)) round(sig2/10000,1) # Genotypes in T1 are divided by 10000 }"},{"path":"/reference/agridat.html","id":null,"dir":"Reference","previous_headings":"","what":"Datasets from agricultural experiments — agridat","title":"Datasets from agricultural experiments — agridat","text":"package contains datasets publications relating agriculture,   including field crops, tree crops, animal studies, others.","code":""},{"path":"/reference/agridat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Datasets from agricultural experiments — agridat","text":"use data, please cite agridat package   original source data. Abbreviations '' column include:   xy = coordinates,   pls = partial least squares,   rsm = response surface methodology,   row-col = row-column design,   ts = time series, Uniformity trials single genotype  Yield monitor  Animals  Trees  Field horticulture crops Time series Summaries: Diallel experiments: Factorial experiments: Multi-environment trials multi-genotype,loc,rep,year: Data markers: hadasch.lettuce.markers, steptoe.morex.geno Data pedigree: butron.maize","code":""},{"path":"/reference/agridat.html","id":"author","dir":"Reference","previous_headings":"","what":"Author","title":"Datasets from agricultural experiments — agridat","text":"Kevin Wright, support many people granted permission include data package.","code":""},{"path":"/reference/agridat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Datasets from agricultural experiments — agridat","text":"J. White Frits van Evert. (2008).   Publishing Agronomic Data.   Agron J. 100, 1396-1400.   https://doi.org/10.2134/agronj2008.0080F","code":""},{"path":"/reference/allcroft.lodging.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of cereal with lodging data — allcroft.lodging","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"Percent lodging given 32 genotypes 7 environments.","code":""},{"path":"/reference/allcroft.lodging.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"data frame 224 observations following 3 variables. env environment, 1-7 gen genotype, 1-32 y percent lodged","code":""},{"path":"/reference/allcroft.lodging.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"data first year three-year study. Used permission Chris Glasbey.","code":""},{"path":"/reference/allcroft.lodging.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"D. J. Allcroft C. . Glasbey, 2003.   Analysis crop lodging using latent variable model.   Journal Agricultural Science, 140, 383--393.   https://doi.org/10.1017/S0021859603003332","code":""},{"path":"/reference/allcroft.lodging.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"","code":"if (FALSE) {  library(agridat) data(allcroft.lodging) dat <- allcroft.lodging  # Transformation dat$sy <- sqrt(dat$y) # Variety 4 has no lodging anywhere, so add a small amount dat[dat$env=='E5' & dat$gen=='G04',]$sy <- .01  libs(lattice) dotplot(env~y|gen, dat, as.table=TRUE,         xlab=\"Percent lodged (by genotype)\", ylab=\"Variety\",         main=\"allcroft.lodging\")  # Tobit model libs(AER) m3 <- tobit(sy ~ 1 + gen + env, left=0, right=100, data=dat)  # Table 2 trial/variety means preds <- expand.grid(gen=levels(dat$gen), env=levels(dat$env)) preds$pred <- predict(m3, newdata=preds) round(tapply(preds$pred, preds$gen, mean),2) round(tapply(preds$pred, preds$env, mean),2)  }"},{"path":"/reference/alwan.lamb.html","id":null,"dir":"Reference","previous_headings":"","what":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"34 sheep sires, number lambs 5 foot shape classes.","code":""},{"path":"/reference/alwan.lamb.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"","code":"data(\"alwan.lamb\")"},{"path":"/reference/alwan.lamb.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"data frame 340 observations following 11 variables. year numeric 1980/1981 breed breed PP, BRP, BR sex sex lamb M/F sire0 sire ID according Alwan shape sire ID according Gilmour count number lambs sire shape foot yr numeric contrast year b1 numeric contrast breeds b2 numeric contrast breeds b3 numeric contrast breeds","code":""},{"path":"/reference/alwan.lamb.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"2513 lambs classified presence deformities   feet.  lambs represent offspring 34 sires, 5 strains,   2 years. variables yr, b1, b2, b3 numeric contrasts fixed   effects defined paper Gilmour (1987) used SAS   example. Gilmour explain reason particular   contrasts. counts classes LF1, LF2, LF3 combined.","code":""},{"path":"/reference/alwan.lamb.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"Mohammed Alwan (1983).   Studies flock mating performance Booroola merino crossbred ram lambs, foot conditions Booroola merino crossbreds Perendale sheep grazed hill country.   Thesis, Massey University. https://hdl.handle.net/10179/5900   Appendix , II.","code":""},{"path":"/reference/alwan.lamb.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"Gilmour, Anderson, Rae (1987).   Variance components underlying scale ordered multiple threshold categorical data using generalized linear mixed model.   Journal Animal Breeding Genetics, 104, 149-155.   https://doi.org/10.1111/j.1439-0388.1987.tb00117.x SAS/STAT(R) 9.2 Users Guide, Second Edition   Example 38.11 Maximum Likelihood Proportional Odds Model Random Effects   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm","code":""},{"path":"/reference/alwan.lamb.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"","code":"if (FALSE) {    library(agridat)   data(alwan.lamb)   dat <- alwan.lamb    # merge LF1 LF2 LF3 class counts, and combine M/F   dat$shape <- as.character(dat$shape)   dat$shape <- ifelse(dat$shape==\"LF2\", \"LF3\", dat$shape)   dat$shape <- ifelse(dat$shape==\"LF1\", \"LF3\", dat$shape)   dat <- aggregate(count ~ year+breed+sire0+sire+shape+yr+b1+b2+b3,                    dat, FUN=sum)    dat <- transform(dat,                    year=factor(year), breed=factor(breed),                    sire0=factor(sire0), sire=factor(sire))   # LF5 or LF3 first is a bit arbitary...affects the sign of the coefficients   dat <- transform(dat, shape=ordered(shape, levels=c(\"LF5\",\"LF4\",\"LF3\")))      # View counts by year and breed   libs(latticeExtra)   dat2 <- aggregate(count ~ year+breed+shape, dat, FUN=sum)   useOuterStrips(barchart(count ~ shape|year*breed, data=dat2,                           main=\"alwan.lamb\"))    # Model used by Gilmour and SAS   dat <- subset(dat, count > 0)    libs(ordinal)   m1 <- clmm(shape ~ yr + b1 + b2 + b3 + (1|sire), data=dat,              weights=count, link=\"probit\", Hess=TRUE)   summary(m1) # Very similar to Gilmour results   ordinal::ranef(m1) # sign is opposite of SAS    ## SAS var of sires .04849   ## Effect   Shape   Estimate   Standard Error   DF   t Value   Pr > |t|   ## Intercept   1   0.3781   0.04907   29   7.71   <.0001   ## Intercept   2   1.6435   0.05930   29   27.72   <.0001   ## yr       0.1422   0.04834   2478   2.94   0.0033   ## b1       0.3781   0.07154   2478   5.28   <.0001   ## b2       0.3157   0.09709   2478   3.25   0.0012   ## b3       -0.09887   0.06508   2478   -1.52   0.1289      ## Gilmour results for probit analysis   ## Int1   .370 +/- .052   ## Int2  1.603 +/- .061   ## Year  -.139 +/- .052   ## B1    -.370 +/- .076   ## B2    -.304 +/- .103   ## B3     .098 +/- .070    # Plot random sire effects with intervals, similar to SAS example   plot.random <- function(model, random.effect, ylim=NULL, xlab=\"\", main=\"\") {     tab <- ordinal::ranef(model)[[random.effect]]     tab <- data.frame(lab=rownames(tab), est=tab$\"(Intercept)\")     tab <- transform(tab,                      lo = est - 1.96 * sqrt(model$condVar),                      hi = est + 1.96 * sqrt(model$condVar))     # sort by est, and return index     ix <- order(tab$est)     tab <- tab[ix,]          if(is.null(ylim)) ylim <- range(c(tab$lo, tab$hi))     n <- nrow(tab)     plot(1:n, tab$est, axes=FALSE, ylim=ylim, xlab=xlab,          ylab=\"effect\", main=main, type=\"n\")     text(1:n, tab$est, labels=substring(tab$lab,2) , cex=.75)     axis(1)     axis(2)     segments(1:n, tab$lo, 1:n, tab$hi, col=\"gray30\")     abline(h=c(-.5, -.25, 0, .25, .5), col=\"gray\")     return(ix)     }   ix <- plot.random(m1, \"sire\")    # foot-shape proportions for each sire, sorted by estimated sire effects   # positive sire effects tend to have lower proportion of lambs in LF4 and LF5   tab <- prop.table(xtabs(count ~ sire+shape, dat), margin=1)   tab <- tab[ix,]   tab <- tab[nrow(tab):1,] # reverse the order   lattice::barchart(tab,                     horizontal=FALSE, auto.key=TRUE,                     main=\"alwan.lamb\", xlab=\"Sire\", ylab=\"Proportion of lambs\",                     scales=list(x=list(rot=70)),                     par.settings = simpleTheme(col=c(\"yellow\",\"orange\",\"red\")) )      detach(\"package:ordinal\") # to avoid VarCorr clash with lme4    }"},{"path":"/reference/ansari.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — ansari.wheat.uniformity","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"Uniformity trial wheat India 1940.","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"","code":"data(\"ansari.wheat.uniformity\")"},{"path":"/reference/ansari.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"data frame 768 observations following 3 variables. row row col column yield yield grain per plot, half-ounces","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"experiment conducted Government Research Farm, Raya   (Muttra District), rainy season 1939-40. \"Wheat sown area 180 ft. x 243 ft. 324 rows   field average fertility. wheat 1938-39 rabi   fallow 1939-40 kharif. seed sown behind desi plough   rows 9 inches apart, length row 180 feet\". \"time harvest, 18 rows sides 10 feet end   field discarded eliminate border effects area   160 feet x 216 feet 288 rows harvested small units,   2 feet 3 inches broad three rows 20 feet long. 96   units across rows eight units along rows. total number   unit plots thus obtained 768. yield grain unit   plot weighed recorded separately given appendix.\" Field width: 96 plots * 2.25 feet = 216 feet. Field length: 8 plots * 20 feet = 160 feet. Comment: seems strong cyclical patern fertility gradient.   \"History field reveals explanation phenomenon, average   field usually found farm selected trial.\"","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"Ansari, M. . ., G. K. Sant (1943).   Study Soil Heterogeneity Relation Size Shape Plots Wheat Field Raya (Muhra District).   Ind. J. Agr. Sci, 13, 652-658.   https://archive.org/details/.ernet.dli.2015.271748","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"None","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(ansari.wheat.uniformity)   dat <- ansari.wheat.uniformity    # match Ansari figure 3   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=216/160, # true aspect           main=\"ansari.wheat.uniformity\")   }"},{"path":"/reference/arankacami.groundnut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"Uniformity trial groundnut","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"","code":"data(\"arankacami.groundnut.uniformity\")"},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"data frame 96 observations following 3 variables. row row col column yield yield, kg/plot","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"year experiment unknown, 1995. Basic plot size 0.75 m (rows) x  4 m (columns).","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"Ira Arankacami, R. Rangaswamy. (1995).   Text Book Agricultural Statistics.   New Age International Publishers.   Table 19.1. Page 237.   https://www.google.com/books/edition/A_Text_Book_of_Agricultural_Statistics/QDLWE4oakSgC","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"None","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"","code":"if (FALSE) { library(agridat) data(arankacami.groundnut.uniformity) dat <- arankacami.groundnut.uniformity  require(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=(12*.75)/(8*4),         main=\"arankacami.groundnut.uniformity\")  }"},{"path":"/reference/archbold.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-split plot experiment of apple trees — archbold.apple","title":"Split-split plot experiment of apple trees — archbold.apple","text":"Split-split plot experiment apple trees different spacing,   root stock, cultivars.","code":""},{"path":"/reference/archbold.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-split plot experiment of apple trees — archbold.apple","text":"data frame 120 observations following 10 variables. rep block, 5 levels row row pos position within row spacing spacing trees, 6,10,14 feet stock rootstock, 4 levels gen genotype, 2 levels yield yield total, kg/tree 1975-1979 trt treatment code","code":""},{"path":"/reference/archbold.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-split plot experiment of apple trees — archbold.apple","text":"rep 1, 10-foot-spacing main plot split two   non-contiguous pieces.  also happened rep 4.  analysis   Cornelius Archbold, consider row x within-row-spacing   distinct main plot.  (Also true 14-foot row-spacing,   even though 14-foot spacing plots contiguous.) treatment code defined 100 * spacing + 10 * stock + gen,   stock=0,1,6,7 Seedling,MM111,MM106,M0007 gen=1,2   Redspur,Golden, respectively.","code":""},{"path":"/reference/archbold.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-split plot experiment of apple trees — archbold.apple","text":"D Archbold G. R. Brown P. L. Cornelius. (1987).   Rootstock -row spacing effects growth yield spur-type   delicious Golden delicious apple.   Journal American Society Horticultural Science, 112, 219-222.","code":""},{"path":"/reference/archbold.apple.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-split plot experiment of apple trees — archbold.apple","text":"Cornelius, PL Archbold, DD, 1989.   Analysis split-split plot experiment missing data using   mixed model equations.   Applications Mixed Models Agriculture Related     Disciplines.  Pages 55-79.","code":""},{"path":"/reference/archbold.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-split plot experiment of apple trees — archbold.apple","text":"","code":"if (FALSE) {  library(agridat) data(archbold.apple) dat <- archbold.apple  # Define main plot and subplot dat <- transform(dat, rep=factor(rep), spacing=factor(spacing), trt=factor(trt),                  mp = factor(paste(row,spacing,sep=\"\")),                  sp = factor(paste(row,spacing,stock,sep=\"\")))  # Due to 'spacing', the plots are different sizes, but the following layout # shows the relative position of the plots and treatments. Note that the # 'spacing' treatments are not contiguous in some reps. libs(desplot) desplot(dat, spacing~row*pos,         col=stock, cex=1, num=gen, # aspect unknown         main=\"archbold.apple\")   libs(lme4, lucid)   m1 <- lmer(yield ~ -1 + trt + (1|rep/mp/sp), dat)  vc(m1)  # Variances/means on Cornelius, page 59 ##         grp        var1 var2   vcov sdcor ## sp:(mp:rep) (Intercept) <NA>  193.3 13.9 ##      mp:rep (Intercept) <NA>  203.8 14.28 ##         rep (Intercept) <NA>  197.3 14.05 ##    Residual        <NA> <NA> 1015   31.86    }"},{"path":"/reference/ars.earlywhitecorn96.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"Multi-environment trial early white food corn 60 white hybrids.","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"data frame 540 observations following 9 variables. loc location, 9 levels gen gen, 60 levels yield yield, bu/ac stand stand, percent rootlodge root lodging, percent stalklodge stalk lodging, percent earht ear height, inches flower days flower moisture moisture, percent","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"Data average 3 replications. Yields measured plot converted bushels / acre   adjusted 15.5 percent moisture. Stand expressed percentage optimum plant stand. Lodging expressed percentage total plants hybrid. Ear height measured soil level top ear leaf collar.   Heights expressed inches. Days flowering number days planting mid-tassel mid-silk. Moisture grain measured harvest.","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"L. Darrah, R. Lundquist, D. West, C. Poneleit, B. Barry, B. Zehr,   . Bockholt, L. Maddux, K. Ziegler, P. Martin. (1996).   White Food Corn 1996 Performance Tests.   Agricultural Research Service Special Report 502.","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"","code":"if (FALSE) {      library(agridat)      data(ars.earlywhitecorn96)   dat <- ars.earlywhitecorn96    libs(lattice)   # These views emphasize differences between locations   dotplot(gen~yield, dat, group=loc, auto.key=list(columns=3),           main=\"ars.earlywhitecorn96\")   ## dotplot(gen~stalklodge, dat, group=loc, auto.key=list(columns=3),   ##         main=\"ars.earlywhitecorn96\")   splom(~dat[,3:9], group=dat$loc, auto.key=list(columns=3),         main=\"ars.earlywhitecorn96\")      # MANOVA   m1 <- manova(cbind(yield,earht,moisture) ~ gen + loc, dat)   m1   summary(m1)    }"},{"path":"/reference/australia.soybean.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of soybean in Australia — australia.soybean","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"Yield traits 58 varieties soybeans, grown four   locations across two years Australia.  four-way data   Year x Loc x Gen x Trait.","code":""},{"path":"/reference/australia.soybean.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"data frame 464 observations following 10 variables. env environment, 8 levels, first character location       last two characters year loc location year year gen genotype soybeans, 1-58 yield yield, metric tons / hectare height height (meters) lodging lodging size seed size, (millimeters) protein protein (percentage) oil oil (percentage)","code":""},{"path":"/reference/australia.soybean.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"Measurement available four locations Queensland, Australia two   consecutive years 1970, 1971. 58 different genotypes soybeans consisted 43 lines (40 local   Australian selections cross, two parents, one   used parent earlier trials) 15 lines   12 US. Lines 1-40 local Australian selections Mamloxi (CPI 172)   Avoyelles (CPI 15939). Note data Basford Tukey book. values line 58 Nambour 1970 Redland Bay 1971 incorrectly listed page 477 20.490 15.070. 17.350 13.000, respectively. data set made available , values corrected. Used permission Kaye Basford, Pieter Kroonenberg.","code":""},{"path":"/reference/australia.soybean.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"Basford, K. E., Tukey, J. W. (1999).   Graphical analysis multiresponse data illustrated plant breeding trial.   Chapman Hall/CRC. Retrieved :   https://three-mode.leidenuniv.nl/data/soybeaninf.htm","code":""},{"path":"/reference/australia.soybean.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"K E Basford (1982). Use Multidimensional Scaling Analysing   Multi-Attribute Genotype Response Across Environments,   Aust J Agric Res, 33, 473--480. Kroonenberg, P. M., & Basford, K. E. B. (1989). investigation   multi-attribute genotype response across environments using three-mode   principal component analysis.   Euphytica, 44, 109--123. Marcin Kozak (2010).   Use parallel coordinate plots multi-response selection   interesting genotypes.   Communications Biometry Crop Science, 5, 83-95.","code":""},{"path":"/reference/australia.soybean.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"","code":"if (FALSE) {    library(agridat)   data(australia.soybean)   dat <- australia.soybean    libs(reshape2)   dm <- melt(dat, id.var=c('env', 'year','loc','gen'))    # Joint plot of genotypes & traits. Similar to Figure 1 of Kroonenberg 1989   dmat <- acast(dm, gen~variable, fun=mean)   dmat <- scale(dmat)   biplot(princomp(dmat), main=\"australia.soybean trait x gen biplot\", cex=.75)     # Figure 1 of Kozak 2010, lines 44-58   libs(reshape2, lattice, latticeExtra)   data(australia.soybean)   dat <- australia.soybean   dat <- melt(dat, id.var=c('env', 'year','loc','gen'))   dat <- acast(dat, gen~variable, fun=mean)   dat <- scale(dat)   dat <- as.data.frame(dat)[,c(2:6,1)]   dat$gen <- rownames(dat)   # data for the graphic by Kozak   dat2 <- dat[44:58,]   dat3 <- subset(dat2, is.element(gen, c(\"G48\",\"G49\",\"G50\",\"G51\")))    parallelplot( ~ dat3[,1:6]|dat3$gen, main=\"australia.soybean\",                as.table=TRUE, horiz=FALSE) +     parallelplot( ~ dat2[,1:6], horiz=FALSE, col=\"gray80\") +     parallelplot( ~ dat3[,1:6]|dat3$gen,                  as.table=TRUE, horiz=FALSE, lwd=2)  }"},{"path":"/reference/bachmaier.nitrogen.html","id":null,"dir":"Reference","previous_headings":"","what":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Trial wheat nitrogen fertilizer two fertility zones","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"","code":"data(\"bachmaier.nitrogen\")"},{"path":"/reference/bachmaier.nitrogen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"data frame 88 observations following 3 variables. nitro nitrogen fertilizer, kg/ha yield wheat yield, Mg/ha zone fertility zone","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Data wheat fertilizer experiment Germany two yield zones.   zone, design RCB 4 blocks 11 nitrogen   levels.   yield plot measured. Electronic data originally downloaded   http://www.tec.wzw.tum.de/bachmaier/vino.zip (longer available).","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Bachmaier, Martin. 2009.   Confidence Set X-Coordinate Quadratic Regression   Model Given Gradient.   Statistical Papers 50: 649–60. https://doi.org/10.1007/s00362-007-0104-1.","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Bachmaier, Martin.   Test confidence set difference x-coordinates   vertices two quadratic regression models.   Stat Papers (2010) 51:285–296, https://doi.org/10.1007/s00362-008-0159-7","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"","code":"library(agridat) data(bachmaier.nitrogen) dat <- bachmaier.nitrogen  # Fit a quadratic model for the low-fertility zone dlow <- subset(dat, zone==\"low\") m1 <- lm(yield ~ nitro + I(nitro^2), dlow)  # Slope of tangent line for economic optimum m <- .005454 # = (N 0.60 euro/kg) / (wheat 110 euro/Mg) # x-value of tangent point b1 <- coef(m1)[2] b2 <- coef(m1)[3] opt.bach <- (m-b1)/(2*b2) round(opt.bach, 0) #> nitro  #>   199   # conf int for x value of tangent point round(vcovs <- vcov(m1), 7) #>             (Intercept)      nitro I(nitro^2) #> (Intercept)   0.1346512 -0.0016680    4.7e-06 #> nitro        -0.0016680  0.0000295   -1.0e-07 #> I(nitro^2)    0.0000047 -0.0000001    0.0e+00 b1b1 <- vcovs[2,2] # estimated var of b1 b1b2 <- vcovs[2,3] # estimated cov of b1,b2 b2b2 <- vcovs[3,3] tval <- qt(1 - 0.05/2, nrow(dlow)-3) A <- b2^2 - b2b2 * tval^2 B <- (b1-m)*b2 - b1b2 * tval^2 C <- ((b1-m)^2 - b1b1 * tval^2)/4 D <- B^2 - 4*A*C x.lo <- -2*C / (B-sqrt(B^2-4*A*C)) x.hi <- (-B + sqrt(B^2-4*A*C))/(2*A) ci.bach <- c(x.lo, x.hi) round(ci.bach,0) # 95% CI 173,260 Matches Bachmaier #> nitro nitro  #>   173   260   # Plot raw data, fitted quadratic, optimum, conf int plot(yield~nitro, dlow) p1 <- data.frame(nitro=seq(0,260, by=1)) p1$pred <- predict(m1, new=p1) lines(pred~nitro, p1) abline(v=opt.bach, col=\"blue\") abline(v=ci.bach, col=\"skyblue\") title(\"Economic optimum with 95 pct confidence interval\")"},{"path":"/reference/bailey.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"Uniformity trial cotton Egypt 1921-1923.","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"","code":"data(\"bailey.cotton.uniformity\")"},{"path":"/reference/bailey.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"data frame 794 observations following 5 variables. row row ordinate col column ordinate yield yield, rotls year year loc location","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"Two pickings taken. weights seeds cotton first   second pickings totaled. Yields measured \"rotl\",   \"order pound\". Layout Sakha Gemmeiza (page 9):    Total area 4.86 feddans.   bed 20 ridges 7 m , total dimension 15 m x 7 m.   Add 1.5m irrigation channel.   Center--center distances 15m x 8.5m. Charts 3 & 5 show yield \"Selected Average Plants\". data   used . Chart 1: Sakha 1921, 8 x 20. Bed yield rotls. Length 20 ridges * .75 m = 15m. Width = 7m. Chart 2: Gemmeiza 1921, 8 x 20. Chart 3: Total S..P. yield grams. (used ) Chart 4: Gemmeiza 1922, 8 x 20. Chart 5: Total S..P. yield grams. (used ) Layout Giza (page 10) Beds 8 ridges 7 m , total dimension 6m x 7m.   Add 1.5m irrigation channel.   Center--center distance 6m x 8.5m Chart 6 - Giza 1921, 14 x 11 = 154 plots Chart 7 - Giza 1923, 20 x 8 = 160 plots Bailey said results Giza 1921 suitable reliability   experiments. Data typed proofread KW 2023.01.11","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"Bailey, M. ., Trought, T. (1926).   account experiments carried determine experimental error field trials cotton Egypt.   Egypt Ministry Agriculture, Technical Science Service Bulletin 63, Min. Agriculture Egypt Technical Science Bulletin 63.   https://www.google.com/books/edition/Bulletin/xBQlAQAAIAAJ?pg=PA46-IA205","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"None","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(bailey.cotton.uniformity)   dat <- bailey.cotton.uniformity   dat <- transform(dat, env=paste(year,loc))    # Data check. Matches Bailey 1926 Table 1. 28.13, , 46.02, 31.74, 13.52   libs(dplyr)   # dat     libs(desplot)   desplot(dat, yield ~ col*row|env, main=\"bailey.cotton.uniformity\")    # The yield scales are quite different at each loc, and the dimensions   # are different, so plot each location separately.   # Note: Bailey does not say if plots are 7x15 meters, or 15x7 meters.   # The choices here seem most likely in our opinion.   desplot(dat, yield ~ col*row, subset= env==\"1921 Sakha\",     main=\"1921 Sakha\", aspect=(20*8.5)/(8*15))   desplot(dat, yield ~ col*row, subset= env==\"1921 Gemmeiza\",     main=\"1921 Gemmeiza\", aspect=(20*8.5)/(8*15))   desplot(dat, yield ~ col*row, subset= env==\"1922 Gemmeiza\",     main=\"1922 Gemmeiza\", aspect=(20*8.5)/(8*15))   desplot(dat, yield ~ col*row, subset= env==\"1921 Giza\",     main=\"1921 Giza\", aspect=(11*6)/(14*8.5))   # 1923 Giza has alternately hi/lo yield rows. Not noticed by Bailey.   desplot(dat, yield ~ col*row, subset= env==\"1923 Giza\",     main=\"1923 Giza\", aspect=(20*6)/(8*8.5))    }"},{"path":"/reference/baker.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"Uniformity trials barley Davis, California, 1925-1935, 10 years ground.","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"data frame 570 observations following 4 variables. row row col column year year yield yield, pounds/acre","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"Ten years uniformity trials sown ground.  Baker   (1952) shows map field, gravel subsoil extended   upper right corner diagonally lower-center.   part field lower yields 10-year average map. Plot 41 1928 missing. Field width: 19 plots = 827 ft Field length: 3 plots * 161 ft + 2 alleys * 15 feet = 513 ft","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"Baker, GA Huberty, MR Veihmeyer, FJ.  (1952)   uniformity trial unirrigated barley ten years' duration.   Agronomy Journal, 44, 267-270.   https://doi.org/10.2134/agronj1952.00021962004400050011x","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"","code":"if (FALSE) {  library(agridat)  data(baker.barley.uniformity) dat <- baker.barley.uniformity  # Ten-year average dat2 <- aggregate(yield ~ row*col, data=dat, FUN=mean, na.rm=TRUE)  libs(desplot) desplot(dat, yield~col*row|year,         aspect = 513/827, # true aspect         main=\"baker.barley.uniformity - heatmaps by year\")  desplot(dat2, yield~col*row,         aspect = 513/827, # true aspect         main=\"baker.barley.uniformity - heatmap of 10-year average\") # Note low yield in upper right, slanting to left a bit due to sandy soil # as shown in Baker figure 1.   # Baker fig 2, stdev vs mean dat3 <- aggregate(yield ~ row*col, data=dat, FUN=sd, na.rm=TRUE) plot(dat2$yield, dat3$yield, xlab=\"Mean yield\", ylab=\"Std Dev yield\",      main=\"baker.barley.uniformity\")  # Baker table 4, correlation of plots across years # libs(reshape2) # mat <- acast(dat, row+col~year) # round(cor(mat, use='pair'),2)  }"},{"path":"/reference/baker.strawberry.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of strawberry — baker.strawberry.uniformity","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"Uniformity trial strawberry","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"","code":"data(\"baker.strawberry.uniformity\")"},{"path":"/reference/baker.strawberry.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"data frame 700 observations following 4 variables. trial Factor trial row row ordinate col column ordinate yield yield per plant/plot grams","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"Trial T1: 200 plants grown two double-row beds Davis,   California, 1946. rows 1 foot apart. beds 42 inches   apart. plants 10 inches apart within row, row   consisting 50 plants. Field length: 50 plants * 10 inches = 500 inches. Field width: 12 + 42 + 12 = 66 inches. layout experiment Table 1 shows 4 columns.   12 inches column 1 column 2, 42 inches,   12 inches column 3 column 4.   data R package, added 3 right two columns   index values indicate layout.   (3.5, want integer). Trial T2: 500 plants grown single beds. beds 30   inches apart. bed 50 plants long 10 inches   plants. Field length: 50 plants * 10 = 500 . Field width: 10 beds * 30 = 300 .","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"G. . Baker R. E. Baker (1953).   Strawberry Uniformity Yield Trials.   Biometrics, 9, 412-421.   https://doi.org/10.2307/3001713","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"None","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"","code":"if (FALSE) {  library(agridat)  data(baker.strawberry.uniformity) dat <- baker.strawberry.uniformity  # Match mean and cv of Baker p 414. libs(dplyr) dat <- group_by(dat, trial) summarize(dat, mn=mean(yield), cv=sd(yield)/mean(yield))  libs(desplot) desplot(dat, yield ~ col*row, subset=trial==\"T1\",         flip=TRUE, aspect=500/66, tick=TRUE,         main=\"baker.strawberry.uniformity - trial T1\") desplot(dat, yield ~ col*row, subset=trial==\"T2\",         flip=TRUE, aspect=500/300, tick=TRUE,         main=\"baker.strawberry.uniformity - trial T2\")  }"},{"path":"/reference/baker.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — baker.wheat.uniformity","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"Uniformity trial wheat","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"","code":"data(\"baker.wheat.uniformity\")"},{"path":"/reference/baker.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"data frame 225 observations following 3 variables. row row col col yield yield (grams)","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"Data collected 1939-1940.  trial consists sixteen 40 ft. x 40 ft. blocks subdivided nine plots . data secured 1939-1940 White Federation wheat. design experiment square alleys 20 feet wide blocks. plots 10 feet long two guard rows side. Morning glories infested middle two columns blocks, uniformly blocks affected. data include missing values alleys field map approximately correct shape size. Field width: 4 blocks 40 feet + 3 alleys 20 feet = 220 feet. Field length: 4 blocks 40 feet + 3 alleys 20 feet = 220 feet.","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"G. . Baker, E. B. Roessler (1957).   Implications uniformity trial small plots wheat.   Hilgardia, 27, 183-188.   https://hilgardia.ucanr.edu/Abstract/?=hilg.v27n05p183   https://doi.org/10.3733/hilg.v27n05p183","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"None","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"","code":"if (FALSE) {      library(agridat)   data(baker.wheat.uniformity)   dat <- baker.wheat.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=1,           main=\"baker.wheat.uniformity\")  }"},{"path":"/reference/bancroft.peanut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of peanuts — bancroft.peanut.uniformity","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"Uniformity trial peanuts Alabama, 1946.","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"","code":"data(\"bancroft.peanut.uniformity\")"},{"path":"/reference/bancroft.peanut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"data frame 216 observations following 5 variables. row row col column yield yield, pounds per plot block block","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"data obtained two parts field, located   Wiregrass Substation, Headland, Alabama, USA.  part 18 rows,   3 feet wide, 100 feet long. Plots harvested 1946. Green   weights pounds recorded. plot 16.66 linear feet row 3 feet width, 50 sq feet. Field width: 6 plots * 16.66 feet = 100 feet Field length: 18 plots * 3 feet = 54 feet Conclusions:   Based relative efficiencies, increasing size plot   along row better across row.  Narrow, rectangular   plots efficient.","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"Bancroft, T. . et a1., (1948).   Size Shape Plots Distribution Plot Yield Field Experiments Peanuts.   Alabama Agricultural Experiment Station Progress Report, sec. 39.   Table 4, page 6.   https://aurora.auburn.edu/bitstream/handle/11200/1345/0477PROG.pdf;sequence=1","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"None","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(bancroft.peanut.uniformity) dat <- bancroft.peanut.uniformity    # match means Bancroft page 3 ## dat  ## # A tibble: 2 x 2 ##   block    mn ##   <chr> <dbl> ## 1 B1     2.46 ## 2 B2     2.05    libs(desplot) desplot(dat, yield ~ col*row|block,         flip=TRUE, aspect=(18*3)/(6*16.66), # true aspect         main=\"bancroft.peanut.uniformity\")  }"},{"path":"/reference/barrero.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize in Texas. — barrero.maize","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"Multi-environment trial maize Texas.","code":""},{"path":"/reference/barrero.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"","code":"data(\"barrero.maize\")"},{"path":"/reference/barrero.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"data frame 14568 observations following 15 variables. year year testing, 2000-2010 yor year release, 2000-2010 loc location, 16 places Texas env environment (year+loc), 107 levels rep replicate, 1-4 gen genotype, 847 levels daystoflower numeric plantheight plant height, cm earheight ear height, cm population plants per hectare lodged percent plants lodged moisture moisture percent testweight test weight kg/ha yield yield, Mt/ha","code":""},{"path":"/reference/barrero.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"large (14500 records), multi-year, multi-location, 10-trait   dataset Texas AgriLife Corn Performance Trials. data 2-row plots approximately 36in wide 25 feet long. Barrero et al. used data estimate genetic gain maize   hybrids 10-year period time. Used permission Seth Murray.","code":""},{"path":"/reference/barrero.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"Barrero, Ivan D. et al. (2013).   multi-environment trial analysis shows slight grain yield improvement Texas commercial maize.   Field Crops Research, 149, Pages 167-176.   https://doi.org/10.1016/j.fcr.2013.04.017","code":""},{"path":"/reference/barrero.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"None.","code":""},{"path":"/reference/barrero.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"","code":"if (FALSE) {   library(agridat)   data(barrero.maize)   dat <- barrero.maize    library(lattice)   bwplot(yield ~ factor(year)|loc, dat,          main=\"barrero.maize - Yield trends by loc\",          scales=list(x=list(rot=90)))      # Table 6 of Barrero. Model equation 1.   if(require(\"asreml\", quietly=TRUE)){     libs(dplyr,lucid)     dat <- arrange(dat, env)     dat <- mutate(dat,                   yearf=factor(year), env=factor(env),                   loc=factor(loc), gen=factor(gen), rep=factor(rep))        m1 <- asreml(yield ~ loc + yearf + loc:yearf, data=dat,                  random = ~ gen + rep:loc:yearf +                    gen:yearf + gen:loc +                    gen:loc:yearf,                  residual = ~ dsum( ~ units|env),                  workspace=\"500mb\")        # Variance components for yield match Barrero table 6.     lucid::vc(m1)[1:5,]     ##        effect component std.error z.ratio bound      ## rep:loc:yearf   0.111     0.01092    10       P 0       ##           gen   0.505     0.03988    13       P 0       ##     gen:yearf   0.05157   0.01472     3.5     P 0       ##       gen:loc   0.02283   0.0152      1.5     P 0.2     ## gen:loc:yearf   0.2068    0.01806    11       P 0            summary(vc(m1)[6:112,\"component\"]) # Means match last row of table 6     ##   Min. 1st Qu.  Median    Mean 3rd Qu.    Max.      ## 0.1286  0.3577  0.5571  0.8330  1.0322  2.9867    } }"},{"path":"/reference/batchelor.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"Uniformity trials apples, lemons, oranges, walnuts,   California & Utah, 1915-1918.","code":""},{"path":"/reference/batchelor.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"dataset following format row row col column yield yield per tree pounds","code":""},{"path":"/reference/batchelor.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"trees affected disease eliminated yield   replaced average eight surrounding trees. following details Batchelor (1918). Jonathan Apples \"apple records obtained 10-year old   Jonathan apple orchard located Providence, Utah. surface soil   orchard uniform appearances except   extreme eastern edge, percentage gravel increases   slightly.  trees planted 16 feet apart, east west, 30   feet apart north south.\" Note: orientation field given paper,   fields paper north top, assumed   true field well.  Yields may 1916. Field width: 8 trees * 16 feet = 128 feet Field length: 28 rows * 30 feet = 840 feet Eureka Lemon lemon (Citrus limonia) tree yields obtained grove   364 23-year-old trees, located Upland, California. records   extend October 1, 1915, October 1, 1916. grove consists   14 rows 23-year-old trees, extending north south, 26 trees   row, planted 24 24 feet apart. grove presents   uniform appearance consideration [paper].   land practically level, soil apparently uniform   texture. records show grouping several low-yielding trees;   yet field observation gives one impression grove   whole remarkably uniform. Field width: 14 trees * 24 feet = 336 feet Field length: 26 trees * 24 feet = 624 feet Navel 1 Arlington records 1915-16 yields one thousand 24-year-old   navel-orange trees near Arlington station, Riverside, California.   grove consists 20 rows trees north south, 50 trees   row, planted 22 22 feet. study records shows certain   distinct high- low-yielding areas. northeast corner   south end contain notably high-yielding trees. north two-thirds   west side contains large number low-yielding trees.   areas apparently correlated soil variation. Variations   tree tree also occur, cause evident.   variations, present every orchard, bring uncertainty   results offield experiments. Field width: 20 trees * 22 feet = 440 feet Field length: 50 trees * 22 feet = 1100 feet Navel 2 Antelope navel-orange grove later referred Antelope Heights   navels plantation 480 ten-yearold trees planted 22 22 feet,   located Naranjo, California. yields 1916. general   appearance trees gives visual impression uniformity   greater comparison individual tree production   substantiates. Field width: 15 trees * 22 feet = 330 feet Field length: 33 trees * 22 feet = 726 feet Valencia Orange Valencia orange grove composed 240 15-year-old trees,   planted 21 feet 6 inches 22 feet 6 inches, located Villa Park,   California. yields obtained 1916. Field width: 12 rows * 22 feet = 264 feet Field length: 20 rows * 22 feet = 440 feet Walnut walnut (Juglans regia) yields obtained seasons   1915 1916 24-year-old Santa Barbara softshell seedling   grove, located Whittier, California.   [Note, yields appear 1915 yields.]   planting laid 10 trees wide 32 trees long, entirely   surrounded additional walnut plantings, except part one   side adjacent orange grove. trees planted   square system, 50 feet apart. Field width: 10 trees * 50 feet = 500 feet Field length: 32 trees * 50 feet = 1600 feet","code":""},{"path":"/reference/batchelor.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"L. D. Batchelor H. S. Reed. (1918).   Relation variability yields fruit trees accuracy   field trials. J. Agric. Res, 12, 245--283.   https://books.google.com/books?id=Lil6AAAAMAAJ&lr&pg=PA245","code":""},{"path":"/reference/batchelor.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/batchelor.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"","code":"if (FALSE) {  library(agridat) libs(desplot)    # Apple   data(batchelor.apple.uniformity)   desplot(batchelor.apple.uniformity, yield~col*row,           aspect=840/128, tick=TRUE, # true aspect           main=\"batchelor.apple.uniformity\")    # Lemon   data(batchelor.lemon.uniformity)   desplot(batchelor.lemon.uniformity, yield~col*row,           aspect=624/336, # true aspect           main=\"batchelor.lemon.uniformity\")    # Navel1 (Arlington)   data(batchelor.navel1.uniformity)   desplot(batchelor.navel1.uniformity, yield~col*row,           aspect=1100/440, # true aspect           main=\"batchelor.navel1.uniformity - Arlington\")    # Navel2 (Antelope)   data(batchelor.navel2.uniformity)   desplot(batchelor.navel2.uniformity, yield~col*row,           aspect=726/330, # true aspect           main=\"batchelor.navel2.uniformity - Antelope\")    # Valencia   data(batchelor.valencia.uniformity)   desplot(batchelor.valencia.uniformity, yield~col*row,           aspect=440/264, # true aspect           main=\"batchelor.valencia.uniformity\")    # Walnut   data(batchelor.walnut.uniformity)   desplot(batchelor.walnut.uniformity, yield~col*row,           aspect=1600/500, # true aspect           main=\"batchelor.walnut.uniformity\")  }"},{"path":"/reference/battese.survey.html","id":null,"dir":"Reference","previous_headings":"","what":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"Survey satellite data corn soy areas Iowa","code":""},{"path":"/reference/battese.survey.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"","code":"data(\"battese.survey\")"},{"path":"/reference/battese.survey.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"data frame 37 observations following 9 variables. county county name segment sample segment number (within county) countysegs number segments county cornhect hectares corn segment soyhect hectares soy cornpix pixels corn segment soypix pixels soy cornmean county mean corn pixels per segment soymean county mean soy pixels per segment","code":""},{"path":"/reference/battese.survey.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"data 12 counties north-central Iowa 1978. USDA determined area soybeans 37 area sampling units   (called 'segments').  segment one square mile (259   hectares).  number pixels classified corn   soybeans came Landsat images obtained Aug/Sep 1978. pixel   represents approximately 0.45 hectares. Data originally compiled USDA. data also available R packages: 'rsae::landsat' 'JoSAE::landsat'.","code":""},{"path":"/reference/battese.survey.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"Battese, George E Harter, Rachel M Fuller, Wayne . (1988).   error-components model prediction county crop areas using   survey satellite data.   Journal American Statistical Association, 83, 28-36.   https://doi.org/10.2307/2288915 Battese (1982) preprint version.   https://www.une.edu.au/__data/assets/pdf_file/0017/15542/emetwp15.pdf","code":""},{"path":"/reference/battese.survey.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"Pushpal K Mukhopadhyay Allen McDowell. (2011).   Small Area Estimation Survey Data Analysis Using SAS Software   SAS Global Forum 2011.","code":""},{"path":"/reference/battese.survey.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"","code":"if (FALSE) {  library(agridat) data(battese.survey) dat <- battese.survey  # Battese fig 1 & 2.  Corn plot shows outlier in Hardin county libs(lattice) dat <- dat[order(dat$cornpix),] xyplot(cornhect ~ cornpix, data=dat, group=county, type=c('p','l'),        main=\"battese.survey\", xlab=\"Pixels of corn\", ylab=\"Hectares of corn\",        auto.key=list(columns=3))  dat <- dat[order(dat$soypix),] xyplot(soyhect ~ soypix, data=dat, group=county, type=c('p','l'),        main=\"battese.survey\", xlab=\"Pixels of soy\", ylab=\"Hectares of soy\",        auto.key=list(columns=3))  libs(lme4, lucid)    # Fit the models of Battese 1982, p.18.  Results match m1 <- lmer(cornhect ~ 1 + cornpix + (1|county), data=dat) fixef(m1) ## (Intercept)     cornpix  ##   5.4661899   0.3878358  vc(m1) ##      grp        var1 var2   vcov  sdcor ##   county (Intercept) <NA>  62.83  7.926 ## Residual        <NA> <NA> 290.4  17.04  m2 <- lmer(soyhect ~ 1 + soypix + (1|county), data=dat) fixef(m2) ## (Intercept)      soypix  ##  -3.8223566   0.4756781  vc(m2) ##      grp        var1 var2  vcov sdcor ##   county (Intercept) <NA> 239.2 15.47 ## Residual        <NA> <NA> 180   13.42    # Predict for Humboldt county as in Battese 1982 table 2 5.4662+.3878*290.74 # 118.2152 # mu_i^0 5.4662+.3878*290.74+ -2.8744 # 115.3408 # mu_i^gamma (185.35+116.43)/2 # 150.89 # y_i bar    # Survey regression estimator of Battese 1988    # Delete the outlier dat2 <- subset(dat, !(county==\"Hardin\" & soyhect < 30))    # Results match top-right of Battese 1988, p. 33 m3 <- lmer(cornhect ~ cornpix + soypix + (1|county), data=dat2) fixef(m3) ## (Intercept)     cornpix      soypix  ##  51.0703979   0.3287217  -0.1345684  vc(m3) ##      grp        var1 var2  vcov sdcor ##   county (Intercept) <NA> 140   11.83 ## Residual        <NA> <NA> 147.3 12.14 m4 <- lmer(soyhect ~ cornpix + soypix + (1|county), data=dat2) fixef(m4) ##  (Intercept)      cornpix       soypix  ## -15.59027098   0.02717639   0.49439320  vc(m4) ##      grp        var1 var2  vcov sdcor ##   county (Intercept) <NA> 247.5 15.73 ## Residual        <NA> <NA> 190.5 13.8   }"},{"path":"/reference/beall.webworms.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"Counts webworms beet field, insecticide treatments.","code":""},{"path":"/reference/beall.webworms.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"","code":"data(\"beall.webworms\")"},{"path":"/reference/beall.webworms.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"data frame 1300 observations following 7 variables. row row col column y count webworms block block trt treatment spray spray treatment yes/lead lead treatment yes/","code":""},{"path":"/reference/beall.webworms.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"beet webworm lays egg masses small 1 egg, seldom exceeding 5   eggs. larvae can move freely, usually mature plant   hatch. plot contained 25 unit areas, 1 row 3 feet long.  row   width 22 inches.  arrangement plots within blocks seems   certain, arrangement blocks/treatments certain,   since authors say \"since plots 5 units long 5 wide   practicable combine groups 5 one   direction \". Treatment 1 = None.  Treatment 2 = Contact spray. Treatment 3 = Lead   arsenate. Treatment 4 = spray, lead arsenate.","code":""},{"path":"/reference/beall.webworms.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"Beall, Geoffrey (1940).   fit significance contagious distributions applied   observations larval insects.   Ecology, 21, 460-474. Table 6.   https://doi.org/10.2307/1930285","code":""},{"path":"/reference/beall.webworms.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"Michal Kosma et al. (2019).   -dispersed count data crop agronomy research.   Journal Agronomy Crop Science.   https://doi.org/10.1111/jac.12333","code":""},{"path":"/reference/beall.webworms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"","code":"if (FALSE) {  library(agridat) data(beall.webworms) dat <- beall.webworms  # Match Beall table 1 # with(dat, table(y,trt))  libs(lattice) histogram(~y|trt, data=dat, layout=c(1,4), as.table=TRUE,           main=\"beall.webworms\")  # Visualize Beall table 6.  Block effects may exist, but barely. libs(desplot) grays <- colorRampPalette(c(\"white\",\"#252525\")) desplot(dat, y ~ col*row,         col.regions=grays(10),         at=0:10-0.5,         out1=block, out2=trt, num=trt, flip=TRUE, # aspect unknown         main=\"beall.webworms (count of worms)\")  # Following plot suggests interaction is needed # with(dat, interaction.plot(spray, lead, y))  # Try the models of Kosma et al, Table 1.  # Poisson model m1 <- glm(y ~ block + spray*lead, data=dat, family=\"poisson\") logLik(m1) # -1497.719 (df=16)  # Negative binomial model # libs(MASS) # m2 <- glm.nb(y ~ block + spray*lead, data=dat) # logLik(m2) # -1478.341 (df=17)  # # Conway=Maxwell-Poisson model (takes several minutes) # libs(spaMM) # # estimate nu parameter # m3 <- fitme(y ~ block + spray*lead, data=dat, family = COMPoisson()) # logLik(m3) # -1475.999  # # Kosma logLik(m3)=-1717 seems too big. Typo? Different model?  }"},{"path":"/reference/beaven.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Yields 8 barley varieties 1913.","code":""},{"path":"/reference/beaven.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"","code":"data(\"beaven.barley\")"},{"path":"/reference/beaven.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"data frame 160 observations following 4 variables. row row col column gen genotype yield yield (grams)","code":""},{"path":"/reference/beaven.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Eight races barley grown regular pattern plots. data prepared Richey (1926) text   cleaner. plot planted 40 inches side, middle square   36 inches side harvested. Field width: 32 plots * 3 feet = 96 feet Field length: 5 plots * 3 feet = 15 feet","code":""},{"path":"/reference/beaven.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Student. (1923).   testing varieties cereals.   Biometrika, 271-293. https://doi.org/10.1093/biomet/15.3-4.271","code":""},{"path":"/reference/beaven.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Frederick D. Richey (1926).   moving average basis measuring correlated   variation agronomic experiments.   Jour. Agr. Research, 32, 1161-1175.","code":""},{"path":"/reference/beaven.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"","code":"if (FALSE) {  library(agridat)  data(beaven.barley) dat <- beaven.barley  # Match the means shown in Richey table IV tapply(dat$yield, dat$gen, mean) ##       a       b       c       d       e       f       g       h ## 298.080 300.710 318.685 295.260 306.410 276.475 304.605 271.820  # Compare to Student 1923, diagram I,II libs(desplot) desplot(dat, yield ~ col*row,         aspect=15/96, # true aspect         main=\"beaven.barley - variety trial\", text=gen) }"},{"path":"/reference/becker.chicken.html","id":null,"dir":"Reference","previous_headings":"","what":"Mating crosses of chickens — becker.chicken","title":"Mating crosses of chickens — becker.chicken","text":"Mating crosses chickens","code":""},{"path":"/reference/becker.chicken.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Mating crosses of chickens — becker.chicken","text":"","code":"data(\"becker.chicken\")"},{"path":"/reference/becker.chicken.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Mating crosses of chickens — becker.chicken","text":"data frame 45 observations following 3 variables. male male parent female female parent weight weight (g) 8 weeks","code":""},{"path":"/reference/becker.chicken.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Mating crosses of chickens — becker.chicken","text":"large flock White Rock chickens, five male sires chosen   mated three female dams, producing 3 female progeny.   data body weights eight weeks age. Becker (1984) used data demonstrate calculation   heritability.","code":""},{"path":"/reference/becker.chicken.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Mating crosses of chickens — becker.chicken","text":"Walter . Becker (1984).   Manual Quantitative Genetics, 4th ed. Page 83.","code":""},{"path":"/reference/becker.chicken.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Mating crosses of chickens — becker.chicken","text":"None","code":""},{"path":"/reference/becker.chicken.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Mating crosses of chickens — becker.chicken","text":"","code":"if (FALSE) {    library(agridat)   data(becker.chicken)   dat <- becker.chicken      libs(lattice)   dotplot(weight ~ female, data=dat, group=male,           main=\"becker.chicken - progeny weight by M*F\",           xlab=\"female parent\",ylab=\"progeny weight\",           auto.key=list(columns=5))    # Sums match Becker   # sum(dat$weight)   # aggregate(weight ~  male + female, dat, FUN=sum)    # Variance components   libs(lme4,lucid)   m1 <- lmer(weight ~  (1|male) + (1|female), data=dat)   # vc(m1)   ## grp        var1 var2      vcov    sdcor   ## 1   female (Intercept) <NA> 1096   33.1   ## 2     male (Intercept) <NA>  776.8 27.87   ## 3 Residual        <NA> <NA> 5524   74.32    # Calculate heritabilities   # s2m <- 776  # variability for males   # s2f <- 1095 # variability for females   # s2w <- 5524 # variability within crosses   # vp <- s2m + s2f + s2w # 7395   # 4*s2m/vp # .42 male heritability   #4*s2f/vp # .59 female heritability  }"},{"path":"/reference/belamkar.augmented.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"Multi-environment trial wheat Nebraska Augmented design","code":""},{"path":"/reference/belamkar.augmented.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"","code":"data(\"belamkar.augmented\")"},{"path":"/reference/belamkar.augmented.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"data frame 2700 observations following 9 variables. loc location rep replicate iblock incomplete block gen_new new genotype (1=yes, 0=) gen_check check genotype (0=) gen genotype name col column ordinate row row ordinate yield yield, bu/ac","code":""},{"path":"/reference/belamkar.augmented.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"experiment 8 locations 270 new, experimental lines   (genotypes) 3 check lines. 10 incomplete blocks   location. 2 replicate blocks Alliance 1 block   locations. plot 3 m long 1.2 m wide. electronic data found supplement S4 downloaded   https://doi.org/10.25387/g3.6249410   license data CC-4.0.","code":""},{"path":"/reference/belamkar.augmented.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"Vikas Belamkar, Mary J. Guttieri, Waseem Hussain, Diego Jarquín,   Ibrahim El-basyoni, Jesse Poland, Aaron J. Lorenz, P. Stephen   Baenziger (2018).   Genomic Selection Preliminary Yield Trials Winter Wheat   Breeding Program.   G3 Genes|Genomes|Genetics, 8, Pages 2735–2747.   https://doi.org/10.1534/g3.118.200415","code":""},{"path":"/reference/belamkar.augmented.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"data appear ASRtriala package: https://vsni.co.uk/free-software/asrtriala","code":""},{"path":"/reference/belamkar.augmented.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"","code":"if (FALSE) {   library(agridat)   data(belamkar.augmented)   dat <- belamkar.augmented    libs(desplot)   desplot(dat, yield ~ col*row|loc, out1=rep, out2=iblock)   # Experiment design showing check placement   dat$gen_check <- factor(dat$gen_check)   desplot(dat, gen_check ~ col*row|loc, out1=rep, out2=iblock,           main=\"belamkar.augmented\")    # Belamkar supplement S3 has R code for analysis   if(require(\"asreml\", quietly=TRUE)){     library(asreml)      # AR1xAR1 model to calculate BLUEs for a single loc     d1 <- droplevels(subset(dat, loc==\"Lincoln\"))     d1$colf <- factor(d1$col)     d1$rowf <- factor(d1$row)     d1$gen <- factor(d1$gen)     d1$gen_check <- factor(d1$gen_check)     d1 <- d1[order(d1$col),]     d1 <- as.data.frame(d1)     m1 <- asreml(fixed=yield ~ gen_check, data=d1,                  random = ~ gen_new:gen,                  residual = ~ar1(colf):ar1v(rowf) )     p1 <- predict(m1, classify=\"gen\")     head(p1$pvals)   } }"},{"path":"/reference/besag.bayesian.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of spring barley in United Kingdom — besag.bayesian","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"RCB experiment spring barley United Kingdom","code":""},{"path":"/reference/besag.bayesian.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"data frame 225 observations following 4 variables. col column (also blocking factor) row row yield yield gen variety/genotype","code":""},{"path":"/reference/besag.bayesian.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"RCB design, column one rep. Used permission David Higdon.","code":""},{"path":"/reference/besag.bayesian.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"Besag, J. E., Green, P. J., Higdon, D. Mengersen, K. (1995).   Bayesian computation stochastic systems.   Statistical Science, 10, 3-66.   https://www.jstor.org/stable/2246224","code":""},{"path":"/reference/besag.bayesian.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"Davison, . C. 2003.   Statistical Models.   Cambridge University Press. Pages 534-535.","code":""},{"path":"/reference/besag.bayesian.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"","code":"if (FALSE) {      library(agridat)   data(besag.bayesian)   dat <- besag.bayesian    # Yield values were scaled to unit variance   # var(dat$yield, na.rm=TRUE)   # .999    # Besag Fig 2. Reverse row numbers to match Besag, Davison   dat$rrow <- 76 - dat$row   libs(lattice)   xyplot(yield ~ rrow|col, dat, layout=c(1,3), type='s',          xlab=\"row\", ylab=\"yield\", main=\"besag.bayesian\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml, lucid)      # Use asreml to fit a model with AR1 gradient in rows       dat <- transform(dat, cf=factor(col), rf=factor(rrow))     m1 <- asreml(yield ~ -1 + gen, data=dat, random= ~ rf)     m1 <- update(m1, random= ~ ar1v(rf))     m1 <- update(m1)     m1 <- update(m1)     m1 <- update(m1)     lucid::vc(m1)        # Visualize trends, similar to Besag figure 2.     # Need 'as.vector' because asreml uses a named vector     dat$res <- unname(m1$resid)     dat$geneff <- coef(m1)$fixed[as.numeric(dat$gen)]     dat <- transform(dat, fert=yield-geneff-res)     libs(lattice)     xyplot(geneff ~ rrow|col, dat, layout=c(1,3), type='s',            main=\"besag.bayesian - Variety effects\", ylim=c(5,15 ))     xyplot(fert ~ rrow|col, dat, layout=c(1,3), type='s',            main=\"besag.bayesian - Fertility\", ylim=c(-2,2))     xyplot(res ~ rrow|col, dat, layout=c(1,3), type='s',            main=\"besag.bayesian - Residuals\", ylim=c(-4,4))   } }"},{"path":"/reference/besag.beans.html","id":null,"dir":"Reference","previous_headings":"","what":"Competition experiment in beans with height measurements — besag.beans","title":"Competition experiment in beans with height measurements — besag.beans","text":"Competition experiment beans height measurements","code":""},{"path":"/reference/besag.beans.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Competition experiment in beans with height measurements — besag.beans","text":"","code":"data(\"besag.beans\")"},{"path":"/reference/besag.beans.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Competition experiment in beans with height measurements — besag.beans","text":"data frame 152 observations following 6 variables. gen genotype / variety height plot height, cm yield plot yield, g row row / block rep replicate factor col column","code":""},{"path":"/reference/besag.beans.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Competition experiment in beans with height measurements — besag.beans","text":"Field beans regular height grown beside shorter varieties.   block, variety occurred left-side neighbor   right-side neighbor every variety (including ).   Border plots placed ends block.   block 38 adjacent plots.   plot one row, 3 meters long 50 cm spacing rows.   gaps plots.  Spacing plants 6.7 cm.   Four blocks (rows) used, six replicates. Plot yield height recorded. Kempton Lockwood used models adjusted yield according   difference height neighboring plots. Field length: 4 plots * 3m = 12m Field width: 38 plots * 0.5 m = 19m","code":""},{"path":"/reference/besag.beans.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Competition experiment in beans with height measurements — besag.beans","text":"Julian Besag Rob Kempton (1986).   Statistical Analysis Field Experiments Using Neighbouring Plots.   Biometrics, 42, 231-251.  Table 6.   https://doi.org/10.2307/2531047","code":""},{"path":"/reference/besag.beans.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Competition experiment in beans with height measurements — besag.beans","text":"Kempton, RA Lockwood, G. (1984).   Inter-plot competition variety trials field beans (Vicia faba L.).   Journal Agricultural Science, 103, 293--302.","code":""},{"path":"/reference/besag.beans.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Competition experiment in beans with height measurements — besag.beans","text":"","code":"if (FALSE) {  library(agridat)  data(besag.beans) dat = besag.beans  libs(desplot) desplot(dat, yield ~ col*row,         aspect=12/19, out1=row, out2=rep, num=gen, cex=1, # true aspect         main=\"besag.beans\")   libs(reshape2) # Add a covariate = excess height of neighbors mat <- acast(dat, row~col, value.var='height') mat2 <- matrix(NA, nrow=4, ncol=38) mat2[,2:37] <- (mat[,1:36] + mat[,3:38] - 2*mat[,2:37]) dat2 <- melt(mat2) colnames(dat2) <- c('row','col','cov') dat <- merge(dat, dat2)    # Drop border plots dat <- subset(dat, rep != 'R0')    libs(lattice) # Plot yield vs neighbors height advantage xyplot(yield~cov, data=dat, group=gen,        main=\"besag.beans\",        xlab=\"Mean excess heights of neighbor plots\",        auto.key=list(columns=3))    # Trial mean. mean(dat$yield) # 391 matches Kempton table 3    # Mean excess height of neighbors for each genotype # tapply(dat$cov, dat$gen, mean)/2 # Matches Kempton table 4  # Variety means, matches Kempton table 4 mean yield m1 <- lm(yield ~ -1 + gen, dat) coef(m1)  # Full model used by Kempton, eqn 5.  Not perfectly clear. # Appears to include rep term, perhaps within block dat$blk <- factor(dat$row) dat$blkrep <- factor(paste(dat$blk, dat$rep)) m2 <- lm(yield ~ -1 + gen + blkrep + cov, data=dat) coef(m2) # slope 'cov' = -.72, while Kempton says -.79  }"},{"path":"/reference/besag.checks.html","id":null,"dir":"Reference","previous_headings":"","what":"Check variety yields in winter wheat. — besag.checks","title":"Check variety yields in winter wheat. — besag.checks","text":"Check variety yields winter wheat.","code":""},{"path":"/reference/besag.checks.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check variety yields in winter wheat. — besag.checks","text":"","code":"data(\"besag.checks\")"},{"path":"/reference/besag.checks.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Check variety yields in winter wheat. — besag.checks","text":"data frame 364 observations following 4 variables. yield yield, units 10g row row col column gen genotype/variety","code":""},{"path":"/reference/besag.checks.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Check variety yields in winter wheat. — besag.checks","text":"data used Besag show spatial variation field   experiment, Besag use data analysis. Yields winter wheat varieties (Bounty Huntsman) Plant   Breeding Institute, Cambridge, 1980. data 'checks'   genotypes larger variety trial. column checks, five columns new varieties.  Repeat. Plot dimensions approx 1.5 4.5 metres Field length: 52 rows * 4.5 m = 234 m Field width: 31 columns * 1.5 m = 46.5 Electronic version data supplied David Clifford.","code":""},{"path":"/reference/besag.checks.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Check variety yields in winter wheat. — besag.checks","text":"Besag, J.E. & Kempton R.. (1986).   Statistical analysis field experiments using neighbouring plots.   Biometrics, 42, 231-251.   https://doi.org/10.2307/2531047","code":""},{"path":"/reference/besag.checks.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Check variety yields in winter wheat. — besag.checks","text":"Kempton, Statistical Methods Plant Variety Evaluation, page 91--92","code":""},{"path":"/reference/besag.checks.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check variety yields in winter wheat. — besag.checks","text":"","code":"if (FALSE) { library(agridat) data(besag.checks) dat <- besag.checks   libs(desplot)   desplot(dat, yield~col*row,           num=gen, aspect=234/46.5, # true aspect           main=\"besag.checks\") }"},{"path":"/reference/besag.elbatan.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"RCB experiment wheat, 50 varieties 3 blocks strong   spatial trend.","code":""},{"path":"/reference/besag.elbatan.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"data frame 150 observations following 4 variables. yield yield wheat gen genotype, factor 50 levels col column/block row row","code":""},{"path":"/reference/besag.elbatan.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"RCB experiment wheat El Batan, Mexico.  three   single-column replicates 50 varieties replicate. Plot dimensions given Besag. Data retrieved   https://web.archive.org/web/19991008143232/www.stat.duke.edu/~higdon/trials/elbatan.dat Used permission David Higdon.","code":""},{"path":"/reference/besag.elbatan.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"Julian Besag D Higdon, 1999.   Bayesian Analysis Agricultural Field Experiments,   Journal Royal Statistical Society: Series B,61, 691--746.   Table 1.   https://doi.org/10.1111/1467-9868.00201","code":""},{"path":"/reference/besag.elbatan.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"Wilkinson 1984. Besag & Seheult 1989.","code":""},{"path":"/reference/besag.elbatan.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"","code":"if (FALSE) {  library(agridat) data(besag.elbatan) dat <- besag.elbatan  libs(desplot) desplot(dat, yield~col*row,         num=gen, # aspect unknown         main=\"besag.elbatan - wheat yields\")   # Besag figure 1 library(lattice) xyplot(yield~row|col, dat, type=c('l'),        layout=c(1,3), main=\"besag.elbatan wheat yields\")   # RCB m1 <- lm(yield ~ 0 + gen + factor(col), dat) p1 <- coef(m1)[1:50]  # Formerly used gam package, but as of R 3.1, Rcmd check --as-cran # is complaining # Calls: plot.gam ... model.matrix.gam -> predict -> predict.gam -> array # but it works perfectly in interactive mode !!! # Remove the FALSE to run the code below if(is.element(\"gam\", search())) detach(package:gam) libs(mgcv) m2 <- mgcv::gam(yield ~ -1 + gen + factor(col) + s(row), data=dat) plot(m2, residuals=TRUE, main=\"besag.elbatan\") pred <- cbind(dat, predict(m2, dat, type=\"terms\")) # Need to correct for the average loess effect, which is like # an overall intercept term. adjlo <-  mean(pred$\"s(row)\") p2 <- coef(m2)[1:50] + adjlo  # Compare estimates lims <- range(c(p1,p2)) plot(p1, p2, xlab=\"RCB prediction\",      ylab=\"RCB with smooth trend (predicted)\",      type='n', xlim=lims, ylim=lims,      main=\"besag.elbatan\") text(p1, p2, 1:50, cex=.5) abline(0,1,col=\"gray\")  }"},{"path":"/reference/besag.endive.html","id":null,"dir":"Reference","previous_headings":"","what":"Presence of footroot disease in an endive field — besag.endive","title":"Presence of footroot disease in an endive field — besag.endive","text":"Presence footroot disease endive field","code":""},{"path":"/reference/besag.endive.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Presence of footroot disease in an endive field — besag.endive","text":"data frame 2506 observations following 3 variables. col column row row disease plant diseased, Y=yes,N=","code":""},{"path":"/reference/besag.endive.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Presence of footroot disease in an endive field — besag.endive","text":"field endives, plant footrot, ?  Data   binary lattice 14 x 179 plants. Modeled autologistic distribution. assume endives single genotype. Besag (1978) may data taken 4 time points.  data   extracted Friel Pettitt.  clear , ,   time point used. Friel give dimensions. Besag available.","code":""},{"path":"/reference/besag.endive.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Presence of footroot disease in an endive field — besag.endive","text":"J Besag (1978).   Methods Statistical Analysis Spatial Data.   Bulletin International Statistical Institute, 47, 77-92.","code":""},{"path":"/reference/besag.endive.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Presence of footroot disease in an endive field — besag.endive","text":"N Friel & . N Pettitt (2004). Likelihood Estimation Inference   Autologistic Model.   Journal Computational Graphical Statistics, 13:1, 232-246.   https://doi.org/10.1198/1061860043029","code":""},{"path":"/reference/besag.endive.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Presence of footroot disease in an endive field — besag.endive","text":"","code":"if (FALSE) {      library(agridat)   data(besag.endive)   dat <- besag.endive    # Incidence map.  Figure 2 of Friel and Pettitt   libs(desplot)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   desplot(dat, disease~col*row,           col.regions=grays(2),           aspect = 0.5, # aspect unknown           main=\"besag.endive - Disease incidence\")         # Besag (2000) \"An Introduction to Markov Chain Monte Carlo\" suggested   # that the autologistic model is not a very good fit for this data.   # We try it anyway.  No idea if this is correct or how to interpret...      libs(ngspatial)   A = adjacency.matrix(179,14)   X = cbind(x=dat$col, y=dat$row)   Z = as.numeric(dat$disease==\"Y\")   m1 <- autologistic(Z ~ 0+X, A=A, control=list(confint=\"none\"))      summary(m1)   ## Coefficients:   ##      Estimate Lower Upper MCSE   ## Xx  -0.007824    NA    NA   NA   ## Xy  -0.144800    NA    NA   NA   ## eta  0.806200    NA    NA   NA       if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          # Now try an AR1xAR1 model.     dat2 <- transform(dat, xf=factor(col), yf=factor(row),                       pres=as.numeric(disease==\"Y\"))          m2 <- asreml(pres ~ 1, data=dat2,                  resid = ~ar1(xf):ar1(yf))     # The 0/1 response is arbitrary, but there is some suggestion     # of auto-correlation in the x (.17) and y (.10) directions,     # suggesting the pattern is more 'patchy' than just random noise,     # but is it meaningful?          lucid::vc(m2)     ##       effect component std.error z.ratio bound      ##     xf:yf(R)   0.1301   0.003798    34       P   0     ## xf:yf!xf!cor   0.1699   0.01942      8.7     U   0     ## xf:yf!yf!cor   0.09842  0.02038      4.8     U   0   }  }"},{"path":"/reference/besag.met.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn, incomplete-block design — besag.met","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"Multi-environment trial corn, incomplete-block designlocation.","code":""},{"path":"/reference/besag.met.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"data frame 1152 observations following 7 variables. county county row row col column rep rep block incomplete block yield yield gen genotype, 1-64","code":""},{"path":"/reference/besag.met.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"Multi-environment trial 64 corn hybrids six counties North   Carolina.  location 3 replicates incomplete-block   design 18x11 lattice plots whose length--width ratio   2:1. Note: original data, county 6 missing plots.    data rows missing plot uses   county/block/rep fill-row, sets genotype G01,   sets yield missing.  missing values added   data asreml easily AR1xAR1 analysis using   rectangular regions. location/panel : Field length: 18 rows * 2 units = 36 units. Field width: 11 plots * 1 unit = 11 units. Retrieved   https://web.archive.org/web/19990505223413/www.stat.duke.edu/~higdon/trials/nc.dat Used permission David Higdon.","code":""},{"path":"/reference/besag.met.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"Julian Besag D Higdon, 1999.   Bayesian Analysis Agricultural Field Experiments,   Journal Royal Statistical Society: Series B, 61, 691--746.   Table 1.   https://doi.org/10.1111/1467-9868.00201","code":""},{"path":"/reference/besag.met.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"","code":"if (FALSE) {    library(agridat)   data(besag.met)   dat <- besag.met    libs(desplot)   desplot(dat, yield ~ col*row|county,           aspect=36/11, # true aspect           out1=rep, out2=block,           main=\"besag.met\")     # Average reps   datm <- aggregate(yield ~ county + gen, data=dat, FUN=mean)      # Sections below fit heteroskedastic variance models (variance for each variety)   # asreml takes 1 second, lme 73 seconds, SAS PROC MIXED 30 minutes      # lme   # libs(nlme)   # m1l <- lme(yield ~ -1 + gen, data=datm, random=~1|county,   #            weights = varIdent(form=~ 1|gen))   # m1l$sigma^2 * c(1, coef(m1l$modelStruct$varStruct, unc = FALSE))^2   ##           G02    G03    G04    G05    G06    G07    G08   ##  91.90 210.75  63.03 112.05  28.39 237.36  72.72  42.97   ## ... etc ...      if(require(\"asreml\", quietly=TRUE)) {    libs(asreml, lucid)     # Average reps    datm <- aggregate(yield ~ county + gen, data=dat, FUN=mean)    #  asreml Using 'rcov' ALWAYS requires sorting the data    datm <- datm[order(datm$gen),]        m1 <- asreml(yield ~ gen, data=datm,                 random = ~ county,                 residual = ~ dsum( ~ units|gen))    vc(m1)[1:7,]    ##      effect component std.error z.ratio bound     ##    county   1324       836.1      1.6     P 0.2    ## gen_G01!R     91.98     58.91     1.6     P 0.1    ## gen_G02!R    210.6     133.6      1.6     P 0.1    ## gen_G03!R     63.06     40.58     1.6     P 0.1    ## gen_G04!R    112.1      71.59     1.6     P 0.1    ## gen_G05!R     28.35     18.57     1.5     P 0.2    ## gen_G06!R    237.4     150.8      1.6     P 0         # We get the same results from asreml & lme    # plot(m1$vparameters[-1],    #      m1l$sigma^2 * c(1, coef(m1l$modelStruct$varStruct, unc = FALSE))^2)        # The following example shows how to construct a GxE biplot    # from the FA2 model.            dat <- besag.met    dat <- transform(dat, xf=factor(col), yf=factor(row))    dat <- dat[order(dat$county, dat$xf, dat$yf), ]        # First, AR1xAR1    m1 <- asreml(yield ~ county, data=dat,                 random = ~ gen:county,                 residual = ~ dsum( ~ ar1(xf):ar1(yf)|county))    # Add FA1    m2 <- update(m1, random=~gen:fa(county,1)) # rotate.FA=FALSE    # FA2    m3 <- update(m2, random=~gen:fa(county,2))    asreml.options(extra=50)    m3 <- update(m3, maxit=50)    asreml.options(extra=0)        # Use the loadings to make a biplot    vars <- vc(m3)    psi <- vars[grepl(\"!var$\", vars$effect), \"component\"]    la1 <- vars[grepl(\"!fa1$\", vars$effect), \"component\"]    la2 <- vars[grepl(\"!fa2$\", vars$effect), \"component\"]    mat <- as.matrix(data.frame(psi, la1, la2))    # I tried using rotate.fa=FALSE, but it did not seem to    # give orthogonal vectors.  Rotate by hand.    rot <- svd(mat[,-1])$v # rotation matrix    lam <- mat[,-1]     colnames(lam) <- c(\"load1\", \"load2\")        co3 <- coef(m3)$random # Scores are the GxE coefficients    ix1 <- grepl(\"_Comp1$\", rownames(co3))    ix2 <- grepl(\"_Comp2$\", rownames(co3))    sco <- matrix(c(co3[ix1], co3[ix2]), ncol=2, byrow=FALSE)    sco <- sco     dimnames(sco) <- list(levels(dat$gen) , c('load1','load2'))    rownames(lam) <- levels(dat$county)    sco[,1:2] <- -1 * sco[,1:2]    lam[,1:2] <- -1 * lam[,1:2]    biplot(sco, lam, cex=.5, main=\"FA2 coefficient biplot (asreml)\")    # G variance matrix    gvar <- lam        # Now get predictions and make an ordinary biplot    p3 <- predict(m3, data=dat, classify=\"county:gen\")    p3 <- p3$pvals    libs(\"gge\")      bi3 <- gge(p3, predicted.value ~ gen*county, scale=FALSE)    if(interactive()) dev.new()    # Very similar to the coefficient biplot    biplot(bi3, stand=FALSE, main=\"SVD biplot of FA2 predictions\")   }    }"},{"path":"/reference/besag.triticale.html","id":null,"dir":"Reference","previous_headings":"","what":"Four-way factorial agronomic experiment in triticale — besag.triticale","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"Four-way factorial agronomic experiment triticale","code":""},{"path":"/reference/besag.triticale.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"","code":"data(\"besag.triticale\")"},{"path":"/reference/besag.triticale.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"data frame 54 observations following 7 variables. yield yield, g/m^2 row row col column gen genotype / variety, 3 levels rate seeding rate, kg/ha nitro nitrogen rate, kw/ha regulator growth regulator, 3 levels","code":""},{"path":"/reference/besag.triticale.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"Experiment conducted factorial yields triticale.  Fully   randomized.  Plots 1.5m x 5.5m, orientation clear. Besag Kempton show accounting neighbors changes   non-significant genotype differences significant differences.","code":""},{"path":"/reference/besag.triticale.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"Julian Besag Rob Kempton (1986).   Statistical Analysis Field Experiments Using Neighbouring Plots.   Biometrics, 42, 231-251. Table 2.   https://doi.org/10.2307/2531047","code":""},{"path":"/reference/besag.triticale.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"None.","code":""},{"path":"/reference/besag.triticale.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"","code":"if (FALSE) {    library(agridat)   data(besag.triticale)   dat <- besag.triticale   dat <- transform(dat, rate=factor(rate), nitro=factor(nitro))   dat <- transform(dat, xf=factor(col), yf=factor(row))    libs(desplot)   desplot(dat, yield ~ col*row,           # aspect unknown           main=\"besag.triticale\")    # Besag & Kempton are not perfectly clear on the model, but   # indicate that there was no evidence of any two-way interactions.   # A reduced, main-effect model had genotype effects that were   # \"close to significant\" at the five percent level.   # The model below has p-value of gen at .04, so must be slightly   # different than their model.   m2 <- lm(yield ~ gen + rate + nitro + regulator + yf, data=dat)   anova(m2)    # Similar, but not exact, to Besag figure 5   dat$res <- resid(m2)   libs(lattice)   xyplot(res ~ col|as.character(row), data=dat,          as.table=TRUE, type=\"s\", layout=c(1,3),          main=\"besag.triticale\")      if(require(\"asreml\", quietly=TRUE)) {     libs(asreml)      # Besag uses an adjustment based on neighboring plots.     # This analysis fits the standard AR1xAR1 residual model          dat <- dat[order(dat$xf, dat$yf), ]     m3 <- asreml(yield ~ gen + rate + nitro + regulator +                    gen:rate + gen:nitro + gen:regulator +                    rate:nitro + rate:regulator +                    nitro:regulator + yf, data=dat,                  resid = ~ ar1(xf):ar1(yf))     wald(m3) # Strongly significant gen, rate, regulator     ##                 Df Sum of Sq Wald statistic Pr(Chisq)         ## (Intercept)      1   1288255        103.971 < 2.2e-16 ***     ## gen              2    903262         72.899 < 2.2e-16 ***     ## rate             1    104774          8.456  0.003638 **      ## nitro            1       282          0.023  0.880139         ## regulator        2    231403         18.676 8.802e-05 ***     ## yf               2      3788          0.306  0.858263         ## gen:rate         2      1364          0.110  0.946461         ## gen:nitro        2     30822          2.488  0.288289         ## gen:regulator    4     37269          3.008  0.556507         ## rate:nitro       1      1488          0.120  0.728954         ## rate:regulator   2     49296          3.979  0.136795         ## nitro:regulator  2     41019          3.311  0.191042         ## residual (MS)          12391                                }    }"},{"path":"/reference/blackman.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Multi-environment trial wheat, conventional semi-dwarf   varieties, 7 locs low/high fertilizer levels.","code":""},{"path":"/reference/blackman.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"data frame 168 observations following 5 variables. gen genotype loc location nitro nitrogen fertilizer, low/high yield yield (g/m^2) type type factor, conventional/semi-dwarf","code":""},{"path":"/reference/blackman.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Conducted U.K. 1975.  loc three reps, two nitrogen   treatments. Locations Begbroke, Boxworth, Crafts Hill, Earith, Edinburgh,   Fowlmere, Trumpington. two highest-yielding locations, Earith Edinburgh, yield   _lower_ high-nitrogen treatment.  Blackman et al. say \"  seems probable effects development structure crop   responsible reductions yield high nitrogen\".","code":""},{"path":"/reference/blackman.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Blackman, JA Bingham, J. Davidson, JL (1978).   Response semi-dwarf conventional winter wheat varieties   application nitrogen fertilizer.   Journal Agricultural Science, 90, 543--550.   https://doi.org/10.1017/S0021859600056070","code":""},{"path":"/reference/blackman.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Gower, J. Lubbe, S.G. Gardner, S. Le Roux, N. (2011).   Understanding Biplots, Wiley.","code":""},{"path":"/reference/blackman.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"","code":"if (FALSE) {  library(agridat) data(blackman.wheat) dat <- blackman.wheat  libs(lattice)  # Semi-dwarf generally higher yielding than conventional # bwplot(yield~type|loc,dat, main=\"blackman.wheat\")  # Peculiar interaction--Ear/Edn locs have reverse nitro response dotplot(gen~yield|loc, dat, group=nitro, auto.key=TRUE,         main=\"blackman.wheat: yield for low/high nitrogen\")  # Height data from table 6 of Blackman.  Height at Trumpington loc. # Shorter varieties have higher yields, greater response to nitro. heights <- data.frame(gen=c(\"Cap\", \"Dur\", \"Fun\", \"Hob\", \"Hun\", \"Kin\",                             \"Ran\", \"Spo\", \"T64\", \"T68\",\"T95\", \"Tem\"),                       ht=c(101,76,76,80,98,88,98,81,86,73,78,93)) dat$height <- heights$ht[match(dat$gen, heights$gen)] xyplot(yield~height|loc,dat,group=nitro,type=c('p','r'),        main=\"blackman.wheat\",        subset=loc==\"Tru\", auto.key=TRUE)   libs(reshape2) # AMMI-style biplot Fig 6.4 of Gower 2011 dat$env <- factor(paste(dat$loc,dat$nitro,sep=\"-\")) datm <- acast(dat, gen~env, value.var='yield') datm <- sweep(datm, 1, rowMeans(datm)) datm <- sweep(datm, 2, colMeans(datm)) biplot(prcomp(datm), main=\"blackman.wheat AMMI-style biplot\")   }"},{"path":"/reference/bliss.borers.html","id":null,"dir":"Reference","previous_headings":"","what":"Corn borer infestation under four treatments — bliss.borers","title":"Corn borer infestation under four treatments — bliss.borers","text":"Corn borer infestation four treatments","code":""},{"path":"/reference/bliss.borers.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Corn borer infestation under four treatments — bliss.borers","text":"data frame 48 observations following 3 variables. borers number borers per hill treat treatment factor freq frequency borer count","code":""},{"path":"/reference/bliss.borers.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Corn borer infestation under four treatments — bliss.borers","text":"Four treatments control corn borers.  Treatment 1 control. 15 blocks, treatment, 8 hills plants examined,   number corn borers present recorded.  data   aggregated across blocks. Bliss mentions level infestation varied significantly   blocks.","code":""},{"path":"/reference/bliss.borers.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Corn borer infestation under four treatments — bliss.borers","text":"C. Bliss R. . Fisher. (1953).   Fitting Negative Binomial Distribution Biological Data.   Biometrics, 9, 176--200.  Table 3.   https://doi.org/10.2307/3001850 Geoffrey Beall. 1940. Fit Significance Contagious   Distributions Applied Observations Larval Insects.   Ecology, 21, 460-474.  Page 463.   https://doi.org/10.2307/1930285","code":""},{"path":"/reference/bliss.borers.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Corn borer infestation under four treatments — bliss.borers","text":"","code":"if (FALSE) {  library(agridat) data(bliss.borers) dat <- bliss.borers  # Add 0 frequencies dat0 <- expand.grid(borers=0:26, treat=c('T1','T2','T3','T4')) dat0 <- merge(dat0,dat, all=TRUE) dat0$freq[is.na(dat0$freq)] <- 0  # Expand to individual (non-aggregated) counts for each hill dd <- data.frame(borers = rep(dat0$borers, times=dat0$freq),                  treat = rep(dat0$treat, times=dat0$freq))  libs(lattice) histogram(~borers|treat, dd, type='count', breaks=0:27-.5,           layout=c(1,4), main=\"bliss.borers\", xlab=\"Borers per hill\")   libs(MASS)   m1 <- glm.nb(borers~0+treat, data=dd)   # Bliss, table 3, presents treatment means, which are matched by:   exp(coef(m1)) # 4.033333 3.166667 1.483333 1.508333   # Bliss gives treatment values k = c(1.532,1.764,1.333,1.190).   # The mean of these is 1.45, similar to this across-treatment estimate   m1$theta # 1.47   # Plot observed and expected distributions for treatment 2 libs(latticeExtra)   xx <- 0:26   yy <- dnbinom(0:26, mu=3.17, size=1.47)*120 # estimates are from glm.nb   histogram(~borers, dd, type='count', subset=treat=='T2',             main=\"bliss.borers - trt T2 observed and expected\",             breaks=0:27-.5) +               xyplot(yy~xx, col='navy', type='b')   # \"Poissonness\"-type plot libs(vcd)   dat2 <- droplevels(subset(dat, treat=='T2'))   vcd::distplot(dat2$borers, type = \"nbinomial\",            main=\"bliss.borers neg binomialness plot\")   # Better way is a rootogram   g1 <- vcd::goodfit(dat2$borers, \"nbinomial\")   plot(g1, main=\"bliss.borers - Treatment 2\")  }"},{"path":"/reference/bond.diallel.html","id":null,"dir":"Reference","previous_headings":"","what":"Diallel cross of winter beans — bond.diallel","title":"Diallel cross of winter beans — bond.diallel","text":"Diallel cross winter beans","code":""},{"path":"/reference/bond.diallel.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diallel cross of winter beans — bond.diallel","text":"data frame 36 observations following 3 variables. female female parent male male parent yield yield, grams/plot stems stems per plot nodes podded nodes per stem pods pods per podded node seeds seeds per pod weight weight (g) per 100 seeds height height (cm) April width width (cm) April flower mean flowering date May","code":""},{"path":"/reference/bond.diallel.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diallel cross of winter beans — bond.diallel","text":"Yield grams/plot full diallel cross 6 inbred lines   winter beans.  Values means two years.","code":""},{"path":"/reference/bond.diallel.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diallel cross of winter beans — bond.diallel","text":"D. . Bond (1966). Yield components yield diallel crosses   inbred lines winter beans (Viciafaba).   Journal Agricultural Science, 67, 325--336.   https://doi.org/10.1017/S0021859600017329","code":""},{"path":"/reference/bond.diallel.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Diallel cross of winter beans — bond.diallel","text":"Peter John, Statistical Design Analysis Experiments, p. 85.","code":""},{"path":"/reference/bond.diallel.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diallel cross of winter beans — bond.diallel","text":"","code":"if (FALSE) {      library(agridat)   data(bond.diallel)   dat <- bond.diallel      # Because these data are means, we will not be able to reproduce   # the anova table in Bond. More useful as a multivariate example.    libs(corrgram)   corrgram(dat[ , 3:11], main=\"bond.diallel\",            lower=panel.pts)    # Multivariate example from sommer package   corrgram(dat[,c(\"stems\",\"pods\",\"seeds\")],            lower=panel.pts, upper=panel.conf, main=\"bond.diallel\")      libs(sommer)              m1 <- mmer(cbind(stems,pods,seeds) ~ 1,              random= ~ vs(female)+vs(male),              rcov= ~ vs(units),              dat)    #### genetic variance covariance   cov2cor(m1$sigma$`u:female`)   cov2cor(m1$sigma$`u:male`)   cov2cor(m1$sigma$`u:units`)  }"},{"path":"/reference/bose.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"Uniformity trials barley, wheat, lentils India 1930-1932.","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"","code":"data(\"bose.multi.uniformity\")"},{"path":"/reference/bose.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"data frame 1170 observations following 5 variables. year year crop crop row row ordinate col column ordinate yield yield per plot grams","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"field 1/4 acre sown three consecutive years (beginning   1929-1930) barley, wheat, lentil. harvest, borders 3 feet east west 6 feet north   south removed. field divided plots four feet square,   harvested separately, measured grams. Fertility contours field somewhat similar across years,   correlation values across years 0.45, 0.48, 0.21. Field width: 15 plots * 4 feet = 60 feet. Field length: 26 plots * 4 feet = 104 feet. Conclusions: \"experimental field may sensibly uniform one crop   one season may another crop different   season\" p. 592.","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"Bose, R. D. (1935).   soil heterogeneity trials Pusa size shape experimental plots.    Ind. J. Agric. Sci., 5, 579-608. Table 1 (p. 585), Table 4 (p. 589), Table 5 (p. 590).   https://archive.org/details/.ernet.dli.2015.271739","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"Shaw (1935).   Handbook Statistics Use Plant-Breeding Agricultural Problems, p. 149-170.   https://krishikosh.egranth.ac./handle/1/21153","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(bose.multi.uniformity)   dat <- bose.multi.uniformity    # match sum at bottom of Bose tables 1, 4, 5   # library(dplyr)   # dat     libs(desplot, dplyr)   # Calculate percent of mean yield for each year   dat <- group_by(dat, year)   dat <- mutate(dat, pctyld = (yield-mean(yield))/mean(yield))    dat <- ungroup(dat)   dat <- mutate(dat, year=as.character(year))   # Bose smoothed the data by averaging 2x3 plots together before drawing   # contour maps.  Heatmaps of raw data have similar structure to Bose Fig 1.   desplot(dat, pctyld ~ col*row|year,           tick=TRUE, flip=TRUE, aspect=(26)/(15),           main=\"bose.multi.* - Percent of mean yield\")      # contourplot() results need to be mentally flipped upside down   # contourplot(pctyld ~ col*row|year, dat,   #   region=TRUE, as.table=TRUE, aspect=26/15)  }"},{"path":"/reference/box.cork.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight of cork samples on four sides of trees — box.cork","title":"Weight of cork samples on four sides of trees — box.cork","text":"cork data gives weights cork borings trunk 28 trees   north (N), east (E), south (S) west (W) directions.","code":""},{"path":"/reference/box.cork.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight of cork samples on four sides of trees — box.cork","text":"Data frame 28 observations following 5 variables. tree tree number dir direction N,E,S,W y weight cork deposit (centigrams), north direction","code":""},{"path":"/reference/box.cork.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight of cork samples on four sides of trees — box.cork","text":"C.R. Rao (1948).   Tests significance multivariate analysis.    Biometrika, 35, 58-79.   https://doi.org/10.2307/2332629","code":""},{"path":"/reference/box.cork.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight of cork samples on four sides of trees — box.cork","text":"K.V. Mardia, J.T. Kent J.M. Bibby (1979) Multivariate Analysis,   Academic Press. Russell D Wolfinger, (1996).   Heterogeneous Variance: Covariance Structures Repeated Measures.   Journal Agricultural, Biological, Environmental     Statistics, 1, 205-230.","code":""},{"path":"/reference/box.cork.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight of cork samples on four sides of trees — box.cork","text":"","code":"if (FALSE) {    library(agridat)   data(box.cork)   dat <- box.cork    libs(reshape2, lattice)   dat2 <- acast(dat, tree ~ dir, value.var='y')   splom(dat2, pscales=3,         prepanel.limits = function(x) c(25,100),         main=\"box.cork\", xlab=\"Cork yield on side of tree\",         panel=function(x,y,...){           panel.splom(x,y,...)           panel.abline(0,1,col=\"gray80\")         })     ## Radial star plot, each tree is one line   libs(plotrix)   libs(reshape2)   dat2 <- acast(dat, tree ~ dir, value.var='y')   radial.plot(dat2, start=pi/2, rp.type='p', clockwise=TRUE,               radial.lim=c(0,100), main=\"box.cork\",               lwd=2, labels=c('North','East','South','West'),               line.col=rep(c(\"royalblue\",\"red\",\"#009900\",\"dark orange\",                              \"#999999\",\"#a6761d\",\"deep pink\"),                            length=nrow(dat2)))    if(require(\"asreml\", quietly=TRUE)) {       libs(asreml, lucid)          # Unstructured covariance     dat$dir <- factor(dat$dir)     dat$tree <- factor(dat$tree)       dat <- dat[order(dat$tree, dat$dir), ]          # Unstructured covariance matrix     m1 <- asreml(y~dir, data=dat, residual = ~ tree:us(dir))          lucid::vc(m1)          # Note: 'rcor' is a personal function to extract the correlations     # into a matrix format     # round(kw::rcor(m1)$dir, 2)     #        E      N      S      W     # E 219.93 223.75 229.06 171.37     # N 223.75 290.41 288.44 226.27     # S 229.06 288.44 350.00 259.54     # W 171.37 226.27 259.54 226.00          # Note: Wolfinger used a common diagonal variance          # Factor Analytic with different specific variances     # fixme: does not work with asreml4     # m2 <- update(m1, residual = ~tree:facv(dir,1))     # round(kw::rcor(m2)$dir, 2)     #       E       N      S      W     # E 219.94 209.46 232.85 182.27     # N 209.46 290.41 291.82 228.43     # S 232.85 291.82 349.99 253.94     # W 182.27 228.43 253.94 225.99   }    }"},{"path":"/reference/bradley.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"Uniformity trial 4 crops land Trinidad.","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"","code":"data(\"bradley.multi.uniformity\")"},{"path":"/reference/bradley.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"data frame 440 observations following 5 variables. row row col column yield yield, pounds per plot season season crop crop","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"Experiments conducted Trinidad. Plots marked May 1939 Fields 1, 2, 3. Prior 1939   difficult obtain significant results land. Plots 1/40 acre , 33 feet square. Discard blocks (  rows) 7 feet plots (columns) 4 feet.   roadways, gap 14 feet blocks 10 11 gap 10   feet plots E/F (call columns 5/6). Data collected 4 crops. Two crops poor germination   omitted. Field width: 10 plots * 33 feet + 8 gaps * 4 feet + 1 gap * 10 = 372 feet Field length: 11 blocks (plots) * 33 feet + 9 gaps * 7 feet + 1 gap * 14 feet = 440 feet Crop 1. Woolly Pyrol. Crop cut flowering weighed pounds.   Note, woolly pyrol appears bean also called black gram,   phaseolus mungo. Crop 2. Woolly Pyrol. Crop cut flowering weighed pounds. Crop 3. Maize. Net weight cobs pounds. Source document also   number cobs. Crop 4. Yams. Weights pounds. Source document weight 1/4   pound, rounded nearest pound. (Half pounds   rounded nearest even pound.) Source document also number   yams. Notes Bradley. edges field tended slightly higher yielding. Thought   due heavier cultivation edges recieve (p. 18). plot row 9, col 7 (9G Bradley) higher yielding   neighbors, thought site saman tree dug burned   field plotted. Bits charcoal still soil. Bradley also examined soil samples selected plots looked   nutrients, moisture, texture, etc. selected plots 4   high-yielding plots 4 low-yielding plots.  Little difference   observed. Unexpectedly, yams gave higher yield plots   compaction.","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"P. L. Bradley (1941).   study variation productivity number fixed plots field 2.   Dissertation: University West Indies. Appendix 1a, 1b, 1c, 1d.   https://uwispace.sta.uwi.edu/items/e874561d-52e5-4e39-8416-ff8c1756049c   https://hdl.handle.net/2139/41259 data repeated :   C. E. Wilson.   Study plots laid field II view obtaining   plot-fertility data use future experiments plots,   season 1940-41.   Dissertation: University West Indies.  Page 36-39.   https://uwispace.sta.uwi.edu/dspace/handle/2139/43658","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"None","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(bradley.multi.uniformity) dat <- bradley.multi.uniformity  # figures similar to Bradley, pages 11-15 libs(desplot) desplot(dat, yield ~ col*row, subset=season==1,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 1, woolly pyrol\")  desplot(dat, yield ~ col*row, subset=season==2,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 2, woolly pyrol\")  desplot(dat, yield ~ col*row, subset=season==3,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 3, maize\")   desplot(dat, yield ~ col*row, subset=season==4,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 4, yams\")  dat1 <- subset(bradley.multi.uniformity, season==1) dat2 <- subset(bradley.multi.uniformity, season==2) dat3 <- subset(bradley.multi.uniformity, season==3) dat4 <- subset(bradley.multi.uniformity, season==4)   # to combine plots across seasons, each yield value was converted to percent   # of maximum yield in that season. Same as Bradley, page 17.   dat1$percent <- dat1$yield / max(dat1$yield) * 100   dat2$percent <- dat2$yield / max(dat2$yield) * 100   dat3$percent <- dat3$yield / max(dat3$yield) * 100   dat4$percent <- dat4$yield / max(dat4$yield) * 100   # make sure data is in same order, then combine   dat1 <- dat1[order(dat1$col, dat1$row),]   dat2 <- dat2[order(dat2$col, dat2$row),]   dat3 <- dat3[order(dat3$col, dat3$row),]   dat4 <- dat4[order(dat4$col, dat4$row),]   dat14 <- dat1[,c('row','col')]   dat14$fertility <- dat1$percent + dat2$percent + dat3$percent + dat4$percent    libs(desplot)   desplot(dat14, fertility ~ col*row,           tick=TRUE, flip=TRUE, aspect=433/366, # true aspect (omits roadways)           main=\"bradley.multi.uniformity - fertility\")  }"},{"path":"/reference/brandle.rape.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rape in Manitoba — brandle.rape","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"Rape seed yields 5 genotypes, 3 years, 9 locations.","code":""},{"path":"/reference/brandle.rape.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"data frame 135 observations following 4 variables. gen genotype year year, numeric loc location, 9 levels yield yield, kg/ha","code":""},{"path":"/reference/brandle.rape.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"yields mean 4 reps. Note, table 2 Brandle, value Triton 1985 Bagot   shown 2355, 2555 match means reported   paper. Used permission P. McVetty.","code":""},{"path":"/reference/brandle.rape.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"Brandle, JE McVetty, PBE. (1988).   Genotype x environment interaction stability analysis seed   yield oilseed rape grown Manitoba.   Canadian Journal Plant Science, 68, 381--388.","code":""},{"path":"/reference/brandle.rape.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"","code":"if (FALSE) {  library(agridat) data(brandle.rape) dat <- brandle.rape  libs(lattice) dotplot(gen~yield|loc, dat, group=year, auto.key=list(columns=3),         main=\"brandle.rape, yields per location\", ylab=\"Genotype\")  # Matches table 4 of Brandle # round(tapply(dat$yield, dat$gen, mean),0)  # Brandle reports variance components: # sigma^2_gl: 9369  gy: 14027 g: 72632 resid: 150000 # Brandle analyzed rep-level data, so the residual variance is different. # The other components are matched by the following analysis.  libs(lme4) libs(lucid) dat$year <- factor(dat$year) m1 <- lmer(yield ~ year + loc + year:loc + (1|gen) +              (1|gen:loc) + (1|gen:year), data=dat) vc(m1) ##      grp        var1 var2  vcov  sdcor ##  gen:loc (Intercept) <NA>  9363  96.76 ## gen:year (Intercept) <NA> 14030 118.4 ##      gen (Intercept) <NA> 72630 269.5 ## Residual        <NA> <NA> 75010 273.9    }"},{"path":"/reference/brandt.switchback.html","id":null,"dir":"Reference","previous_headings":"","what":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"Switchback experiment dairy cattle, milk yield two treatments","code":""},{"path":"/reference/brandt.switchback.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"","code":"data(\"brandt.switchback\")"},{"path":"/reference/brandt.switchback.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"data frame 30 observations following 5 variables. group group: ,B cow cow, 10 levels trt treatment, 2 levels period period, 3 levels yield milk yield, pounds","code":""},{"path":"/reference/brandt.switchback.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"experiment, 10 cows selected Iowa State College   Holstein-Friesian herd divided two equal groups. Care   taken groups nearly equal possible regard   milk production, stage gestation, body weight, condition   age. cows given 10 pounds timothy hay 30 pounds   corn silage daily fed different grain mixtures. Treatment   T1, , consisted feeding grain mixture 1 part corn   cob meal 1 part ground oats, treatment T2 consisted   feeding grain mixture 4 parts corn cob meal, 4 parts   ground oats 3 parts gluten feed. three treatment periods   covered 105 days -- three periods 35 days . yields   first 7 days period considered   possible effect transition one treatment .   data, together sums differences aid calculations   incidental testing, given table 2. seems safe conclude inclusion gluten feed   grain mixture fed timothy hay ration Holstein-Friesian cows   increased production milk. average increase 21.7 pounds   per cow 28-day period.","code":""},{"path":"/reference/brandt.switchback.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":".E. Brandt (1938). Tests Significance Reversal Switchback Trials   Iowa State College, Agricultural Research Bulletins. Bulletin 234. Book 22.   https://lib.dr.iastate.edu/ag_researchbulletins/22/","code":""},{"path":"/reference/brandt.switchback.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"","code":"if (FALSE) {    library(agridat)  data(brandt.switchback) dat <- brandt.switchback  # In each period, treatment 2 is slightly higher # bwplot(yield~trt|period,dat, layout=c(3,1), main=\"brandt.switchback\", #     xlab=\"Treatment\", ylab=\"Milk yield\")  # Yield at period 2 (trt T2) is above the trend in group A, # below the trend (trt T1) in group B. # Equivalently, treatment T2 is above the trend line libs(lattice) xyplot(yield~period|group, data=dat, group=cow, type=c('l','r'),     auto.key=list(columns=5), main=\"brandt.switchback\",     xlab=\"Period.  Group A: T1,T2,T1.  Group B: T2,T1,T2\",     ylab=\"Milk yield (observed and trend) per cow\")  # Similar to Brandt Table 10 m1 <- aov(yield~period+group+cow:group+period:group, data=dat) anova(m1)  }"},{"path":"/reference/bridges.cucumber.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"Cucumber yields latin square design two locs.","code":""},{"path":"/reference/bridges.cucumber.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"data frame 32 observations following 5 variables. loc location gen genotype/cultivar row row col column yield weight marketable fruit per plot","code":""},{"path":"/reference/bridges.cucumber.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"Conducted Clemson University 1985.  four cucumber cultivars   grown latin square design Clemson, SC, Tifton, GA. Separate variances modeled location. Plot dimensions given. Bridges (1989) used data illustrate fitting heterogeneous   mixed model. Used permission William Bridges.","code":""},{"path":"/reference/bridges.cucumber.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"William Bridges (1989).   Analysis plant breeding experiment   heterogeneous variances using mixed model equations.   Applications mixed models agriculture related     disciplines, S. Coop. Ser. Bull, 45--51.","code":""},{"path":"/reference/bridges.cucumber.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"","code":"if (FALSE) {    library(agridat)   data(bridges.cucumber)   dat <- bridges.cucumber   dat <- transform(dat, rowf=factor(row), colf=factor(col))    libs(desplot)   desplot(dat, yield~col*row|loc,           # aspect unknown           text=gen, cex=1,           main=\"bridges.cucumber\")    # Graphical inference test for heterogenous variances   libs(nullabor)   # Create a lineup of datasets   fun <- null_permute(\"loc\")   dat20 <- lineup(fun, dat, n=20, pos=9)    # Now plot   libs(lattice)   bwplot(yield ~ loc|factor(.sample), dat20,          main=\"bridges.cucumber - graphical inference\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          ## Random row/col/resid. Same as Bridges 1989, p. 147     m1 <- asreml(yield ~ 1 + gen + loc + loc:gen,                  random = ~ rowf:loc + colf:loc, data=dat)        lucid::vc(m1)     ##   effect component std.error z.ratio bound      ## rowf:loc     31.62     23.02     1.4     P   0     ## colf:loc     18.08     15.32     1.2     P   0     ## units(R)     31.48     12.85     2.4     P   0          ## Random row/col/resid at each loc. Matches p. 147     m2 <- asreml(yield ~ 1 + gen + loc + loc:gen,                  random = ~ at(loc):rowf + at(loc):colf, data=dat,                  resid = ~ dsum( ~ units|loc))     lucid::vc(m2)     ##                effect component std.error z.ratio bound      ## at(loc, Clemson):rowf     32.32    36.58     0.88     P   0     ##  at(loc, Tifton):rowf     30.92    28.63     1.1      P   0     ## at(loc, Clemson):colf     22.55    28.78     0.78     P   0     ##  at(loc, Tifton):colf     13.62    14.59     0.93     P   0     ##        loc_Clemson(R)     46.85    27.05     1.7      P   0     ##         loc_Tifton(R)     16.11     9.299    1.7      P   0          predict(m2, data=dat, classify='loc:gen')$pvals     ##       loc      gen predicted.value std.error    status     ## 1 Clemson   Dasher            45.6      5.04 Estimable     ## 2 Clemson Guardian            31.6      5.04 Estimable     ## 3 Clemson Poinsett            21.4      5.04 Estimable     ## 4 Clemson   Sprint            26        5.04 Estimable     ## 5  Tifton   Dasher            50.5      3.89 Estimable     ## 6  Tifton Guardian            38.7      3.89 Estimable     ## 7  Tifton Poinsett            33        3.89 Estimable     ## 8  Tifton   Sprint            39.2      3.89 Estimable          # Is a heterogeneous model justified? Maybe not.     # m1$loglik     ## -67.35585     # m2$loglik     ## -66.35621   }    }"},{"path":"/reference/broadbalk.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"Long term wheat yields Broadbalk fields Rothamsted.","code":""},{"path":"/reference/broadbalk.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"data frame 1258 observations following 4 variables. year year plot plot grain grain yield, tonnes straw straw yield, tonnes","code":""},{"path":"/reference/broadbalk.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"Note: data 1852-1925.  can find recent data   experiments Electronic Rothamsted Archive:   https://www.era.rothamsted.ac.uk/ Rothamsted Experiment station conducted wheat experiments   Broadbalk Fields beginning 1844 data yields grain   straw collected 1852 1925.   Ronald Fisher hired analyze data agricultural trials.   Organic manures inorganic fertilizer treatments applied   various combinations plots. N1 48kg, N1.5 72kg, N2 96kg, N4 192kg nitrogen.  Electronic version data retrieved http://lib.stat.cmu.edu/datasets/Andrews/","code":""},{"path":"/reference/broadbalk.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"D.F. Andrews .M. Herzberg. 1985. \tData: Collection Problems Many Fields Student   Research Worker.   Springer.","code":""},{"path":"/reference/broadbalk.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"Broadbalk Winter Wheat Experiment.   https://www.era.rothamsted.ac.uk/index.php?area=home&page=index&dataset=4","code":""},{"path":"/reference/broadbalk.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"","code":"if (FALSE) {    library(agridat) data(broadbalk.wheat) dat <- broadbalk.wheat  libs(lattice) ## xyplot(grain~straw|plot, dat, type=c('p','smooth'), as.table=TRUE, ##        main=\"broadbalk.wheat\") xyplot(grain~year|plot, dat, type=c('p','smooth'), as.table=TRUE,        main=\"broadbalk.wheat\") # yields are decreasing  # See the treatment descriptions to understand the patterns redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(grain~year*plot, dat, main=\"broadbalk.wheat: Grain\", col.regions=redblue)  }"},{"path":"/reference/bryan.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"Uniformity trial corn 3 locations Iowa.","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"","code":"data(\"bryan.corn.uniformity\")"},{"path":"/reference/bryan.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"data frame 1728 observations following 4 variables. expt experiment (variety/orientation) row row col column yield yield, pounds per plot","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"Three varieties corn planted.   experiment 48 rows, row 48 hills long, .65 acres.   \"hill\" single hole possibly multiple seeds.   Spacing hills sqrt(43560 sq ft * .64) / 48 = 3.5 feet. experiment code, K=Krug, =Iodent, M=McCulloch (varieties   corn), 23=1923, 25=1925, E=East/West, N=North/South. experiment aggregated experimental units combining 8   hills, East/West direction also North/South direction.   Thus, field represented twice data, \"E\"   field name \"N\".","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"Arthur Bryan (1933).   Factors Affecting Experimental Error Field Plot Tests Corn.   Agricultural Experiment Station, Iowa State College. Tables 22-27.   https://hdl.handle.net/2027/uiug.30112019568168","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"None","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(bryan.corn.uniformity)   dat <- bryan.corn.uniformity      libs(desplot)   desplot(dat, yield ~ col*row|expt,           main=\"bryan.corn.uniformity\",           aspect=(48*3.5/(6*8*3.5)), # true aspect           flip=TRUE, tick=TRUE)    # CVs in Table 5, column 8 hills   # libs(dplyr)   # dat    #   summarize(cv=sd(yield)/mean(yield)*100)   ##   expt    cv   ## 1 K23E  10.9   ## 2 K23N  10.9   ## 3 I25E  16.3   ## 4 I25N  17.0   ## 5 M25E  16.2   ## 6 M25N  17.2  }"},{"path":"/reference/buntaran.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"Multi-environment trial wheat Sweden 2016.","code":""},{"path":"/reference/buntaran.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"","code":"data(\"buntaran.wheat\")"},{"path":"/reference/buntaran.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"data frame 1069 observations following 7 variables. zone Geographic zone: south, middle, north loc Location rep Block replicate (4) alpha Incomplete-block alpha design gen Genotype (cultivar) yield Dry matter yield, kg/ha","code":""},{"path":"/reference/buntaran.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"Dry matter yield wheat trials Sweden 2016. experiments   location multi-rep incomplete blocks alpha   design. Electronic data online supplement Buntaran (2020) also \"init\" package https://github.com/Flavjack/inti.","code":""},{"path":"/reference/buntaran.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"Buntaran, Harimurti et al. (2020).   Cross-validation stagewise mixed-model analysis Swedish variety trials winter wheat spring barley.   Crop Science, 60, 2221-2240.   http://doi.org/10.1002/csc2.20177","code":""},{"path":"/reference/buntaran.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"None.","code":""},{"path":"/reference/buntaran.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"","code":"if (FALSE) { data(buntaran.wheat) library(agridat) dat <- buntaran.wheat library(lattice) bwplot(yield~loc|zone, dat, layout=c(1,3),        scales=list(x=list(rot=90)),        main=\"buntaran.wheat\") }"},{"path":"/reference/burgueno.alpha.html","id":null,"dir":"Reference","previous_headings":"","what":"Incomplete block alpha design — burgueno.alpha","title":"Incomplete block alpha design — burgueno.alpha","text":"Incomplete block alpha design","code":""},{"path":"/reference/burgueno.alpha.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Incomplete block alpha design — burgueno.alpha","text":"","code":"data(\"burgueno.alpha\")"},{"path":"/reference/burgueno.alpha.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Incomplete block alpha design — burgueno.alpha","text":"data frame 48 observations following 6 variables. rep rep, 3 levels block block, 12 levels row row col column gen genotype, 16 levels yield yield","code":""},{"path":"/reference/burgueno.alpha.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Incomplete block alpha design — burgueno.alpha","text":"field experiment 3 reps, 4 blocks per rep, laid alpha   design. plot size given. Electronic version data obtained CropStat software. Used permission Juan Burgueno.","code":""},{"path":"/reference/burgueno.alpha.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Incomplete block alpha design — burgueno.alpha","text":"J Burgueno, Cadena, J Crossa, M Banziger, Gilmour, B Cullis. 2000.   User's guide spatial analysis field variety trials using ASREML.     CIMMYT.   https://books.google.com/books?id=PR_tYCFyLCYC&pg=PA1","code":""},{"path":"/reference/burgueno.alpha.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Incomplete block alpha design — burgueno.alpha","text":"","code":"if (FALSE) {    library(agridat)   data(burgueno.alpha)   dat <- burgueno.alpha    libs(desplot)   desplot(dat, yield~col*row,           out1=rep, out2=block, # aspect unknown           text=gen, cex=1,shorten=\"none\",           main='burgueno.alpha')     libs(lme4,lucid)   # Inc block model   m0 <- lmer(yield ~ gen + (1|rep/block), data=dat)   vc(m0) # Matches Burgueno p. 26   ##        grp        var1 var2   vcov sdcor   ##  block:rep (Intercept) <NA>  86900 294.8   ##        rep (Intercept) <NA> 200900 448.2   ##   Residual        <NA> <NA> 133200 365       if(require(\"asreml\", quietly=TRUE)) {     libs(asreml)          dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf),]                           # Sequence of models on page 36 of Burgueno          m1 <- asreml(yield ~  gen, data=dat)     m1$loglik # -232.13          m2 <- asreml(yield ~  gen, data=dat,                  random = ~ rep)     m2$loglik # -223.48          # Inc Block model     m3 <- asreml(yield ~  gen, data=dat,                  random = ~ rep/block)     m3$loglik # -221.42     m3$coef$fixed # Matches solution on p. 27          # AR1xAR1 model     m4 <- asreml(yield ~ 1 + gen, data=dat,                  resid = ~ar1(xf):ar1(yf))     m4$loglik # -221.47     plot(varioGram(m4), main=\"burgueno.alpha\") # Figure 1          m5 <- asreml(yield ~ 1 + gen, data=dat,                  random= ~ yf, resid = ~ar1(xf):ar1(yf))     m5$loglik # -220.07          m6 <- asreml(yield ~ 1 + gen + pol(yf,-2), data=dat,                  resid = ~ar1(xf):ar1(yf))     m6$loglik # -204.64          m7 <- asreml(yield ~ 1 + gen + lin(yf), data=dat,                  random= ~ spl(yf), resid = ~ar1(xf):ar1(yf))     m7$loglik # -212.51          m8 <- asreml(yield ~ 1 + gen + lin(yf), data=dat,                  random= ~ spl(yf))     m8$loglik # -213.91          # Polynomial model with predictions     m9 <- asreml(yield ~ 1 + gen + pol(yf,-2) + pol(xf,-2), data=dat,                  random= ~ spl(yf),                  resid = ~ar1(xf):ar1(yf))     m9 <- update(m9)     m9$loglik # -191.44 vs -189.61        m10 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   resid = ~ar1(xf):ar1(yf))     m10$loglik # -211.56          m11 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   random= ~ spl(yf),                   resid = ~ar1(xf):ar1(yf))     m11$loglik # -208.90          m12 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   random= ~ spl(yf)+spl(xf),                   resid = ~ar1(xf):ar1(yf))     m12$loglik # -206.82          m13 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   random= ~ spl(yf)+spl(xf))     m13$loglik # -207.52   }    }"},{"path":"/reference/burgueno.rowcol.html","id":null,"dir":"Reference","previous_headings":"","what":"Row-column design — burgueno.rowcol","title":"Row-column design — burgueno.rowcol","text":"Row-column design","code":""},{"path":"/reference/burgueno.rowcol.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Row-column design — burgueno.rowcol","text":"","code":"data(\"burgueno.rowcol\")"},{"path":"/reference/burgueno.rowcol.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Row-column design — burgueno.rowcol","text":"data frame 128 observations following 5 variables. rep rep, 2 levels row row col column gen genotype, 64 levels yield yield, tons/ha","code":""},{"path":"/reference/burgueno.rowcol.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Row-column design — burgueno.rowcol","text":"field experiment two contiguous replicates 8 rows, 16   columns. plot size given. Electronic version data obtained CropStat software. Used permission Juan Burgueno.","code":""},{"path":"/reference/burgueno.rowcol.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Row-column design — burgueno.rowcol","text":"J Burgueno, Cadena, J Crossa, M Banziger, Gilmour, B Cullis (2000).   User's guide spatial analysis field variety trials using ASREML.   CIMMYT.","code":""},{"path":"/reference/burgueno.rowcol.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Row-column design — burgueno.rowcol","text":"","code":"if (FALSE) {    library(agridat)   data(burgueno.rowcol)   dat <- burgueno.rowcol    # Two contiguous reps in 8 rows, 16 columns   libs(desplot)   desplot(dat, yield ~ col*row,           out1=rep, # aspect unknown           text=gen, shorten=\"none\", cex=.75,           main=\"burgueno.rowcol\")    libs(lme4,lucid)      # Random rep, row and col within rep   # m1 <- lmer(yield ~ gen + (1|rep) + (1|rep:row) + (1|rep:col), data=dat)   # vc(m1) # Match components of Burgueno p. 40   ##      grp        var1 var2   vcov  sdcor   ##  rep:col (Intercept) <NA> 0.2189 0.4679   ##  rep:row (Intercept) <NA> 0.1646 0.4057   ##      rep (Intercept) <NA> 0.1916 0.4378   ## Residual        <NA> <NA> 0.1796 0.4238      if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          # AR1 x AR1 with linear row/col effects, random spline row/col     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf,dat$yf),]     m2 <- asreml(yield ~ gen + lin(yf) + lin(xf), data=dat,                  random = ~ spl(yf) + spl(xf),                  resid = ~ ar1(xf):ar1(yf))     m2 <- update(m2) # More iterations          # Scaling of spl components has changed in asreml from old versions     lucid::vc(m2) # Match Burgueno p. 42     ##       effect component std.error z.ratio bound      ##      spl(yf)  0.09077    0.08252   1.1       P 0     ##      spl(xf)  0.08107    0.08209   0.99      P 0     ##     xf:yf(R)  0.1482     0.03119   4.8       P 0     ## xf:yf!xf!cor  0.1152     0.2269    0.51      U 0.1     ## xf:yf!yf!cor  0.009467   0.2414    0.039     U 0.9          plot(varioGram(m2), main=\"burgueno.rowcol\")   }    }"},{"path":"/reference/burgueno.unreplicated.html","id":null,"dir":"Reference","previous_headings":"","what":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"Field experiment unreplicated genotypes plus one repeated check.","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"","code":"data(\"burgueno.unreplicated\")"},{"path":"/reference/burgueno.unreplicated.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"data frame 434 observations following 4 variables. gen genotype, 281 levels col column row row yield yield, tons/ha","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"field experiment 280 new genotypes.  check genotype   planted every 4th column. plot size given. Electronic version data obtained CropStat software. Used permission Juan Burgueno.","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"J Burgueno, Cadena, J Crossa, M Banziger, Gilmour, B Cullis (2000).   User's guide spatial analysis field variety trials using ASREML.   CIMMYT.","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"","code":"if (FALSE) {    library(agridat)   data(burgueno.unreplicated)   dat <- burgueno.unreplicated    # Define a 'check' variable for colors   dat$check <- ifelse(dat$gen==\"G000\", 2, 1)   # Every fourth column is the 'check' genotype   libs(desplot)   desplot(dat, yield ~ col*row,           col=check, num=gen, #text=gen, cex=.3, # aspect unknown           main=\"burgueno.unreplicated\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)      # AR1 x AR1 with random genotypes     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf,dat$yf),]     m2 <- asreml(yield ~ 1, data=dat, random = ~ gen,                  resid = ~ ar1(xf):ar1(yf))     lucid::vc(m2)     ##       effect component std.error z.ratio bound      ##          gen    0.9122   0.127       7.2     P 0       ##     xf:yf(R)    0.4993   0.05601     8.9     P 0       ## xf:yf!xf!cor   -0.2431   0.09156    -2.7     U 0       ## xf:yf!yf!cor    0.1255   0.07057     1.8     U 0.1          # Note the strong saw-tooth pattern in the variogram.  Seems to     # be column effects.     plot(varioGram(m2), xlim=c(0,15), ylim=c(0,9), zlim=c(0,0.5),          main=\"burgueno.unreplicated - AR1xAR1\")     # libs(lattice) # Show how odd columns are high     # bwplot(resid(m2) ~ col, data=dat, horizontal=FALSE)          # Define an even/odd column factor as fixed effect     # dat$oddcol <- factor(dat$col      # The modulus operator throws a bug, so do it the hard way.     dat$oddcol <- factor(dat$col - floor(dat$col / 2) *2 )        m3 <- update(m2, yield ~ 1 + oddcol)     m3$loglik # Matches Burgueno table 3, line 3          plot(varioGram(m3), xlim=c(0,15), ylim=c(0,9), zlim=c(0,0.5),          main=\"burgueno.unreplicated - AR1xAR1 + Even/Odd\")     # Much better-looking variogram   }    }"},{"path":"/reference/butron.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize with pedigrees — butron.maize","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"Maize yields multi-environment trial.  Pedigree included.","code":""},{"path":"/reference/butron.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"data frame 245 observations following 5 variables. gen genotype male male parent female female parent env environment yield yield, Mg/ha","code":""},{"path":"/reference/butron.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"Ten inbreds crossed produce diallel without reciprocals.   45 F1 crosses evaluated along 4 checks   triple-lattice 7x7 design.  Pink stem borer infestation natural. Experiments performed  1995 1996 three sites   northwestern Spain:   Pontevedra (42 deg 24 min N, 8 deg 38 min W, 20 m sea),   Pontecaldelas (42 deg 23 N, 8 min 32 W, 300 m sea),   Ribadumia (42 deg 30 N, 8 min 46 W, 50 m sea). two-letter location code year concatenated define   environment. average number larvae per plant environment: Used permission Ana Butron.","code":""},{"path":"/reference/butron.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"Butron, Velasco, P Ordas, Malvar, RA (2004).   Yield evaluation maize cultivars across environments different   levels pink stem borer infestation.   Crop Science, 44, 741-747.   https://doi.org/10.2135/cropsci2004.7410","code":""},{"path":"/reference/butron.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"","code":"if (FALSE) {    library(agridat)   data(butron.maize)   dat <- butron.maize    libs(reshape2)   mat <- acast(dat, gen~env, value.var='yield')   mat <- sweep(mat, 2, colMeans(mat))   mat.svd <- svd(mat)   # Calculate PC1 and PC2 scores as in Table 4 of Butron   # Comment out to keep Rcmd check from choking on '   # round(mat.svd$u[,1:2]     biplot(princomp(mat), main=\"butron.maize\", cex=.7) # Figure 1 of Butron     if(require(\"asreml\", quietly=TRUE)) {      # Here we see if including pedigree information is helpful for a     # multi-environment model     # Including the pedigree provided little benefit          # Create the pedigree     ped <- dat[, c('gen','male','female')]     ped <- ped[!duplicated(ped),] # remove duplicates     unip <- unique(c(ped$male, ped$female)) # Unique parents     unip <- unip[!is.na(unip)]     # We have to define parents at the TOP of the pedigree     ped <- rbind(data.frame(gen=c(\"Dent\",\"Flint\"), # genetic groups                             male=c(0,0),                             female=c(0,0)),                  data.frame(gen=c(\"A509\",\"A637\",\"A661\",\"CM105\",\"EP28\",                                   \"EP31\",\"EP42\",\"F7\",\"PB60\",\"Z77016\"),                             male=rep(c('Dent','Flint'),each=5),                             female=rep(c('Dent','Flint'),each=5)),                  ped)     ped[is.na(ped$male),'male'] <- 0     ped[is.na(ped$female),'female'] <- 0      libs(asreml)     ped.ainv <- ainverse(ped)            m0 <- asreml(yield ~ 1+env, data=dat, random = ~ gen)     m1 <- asreml(yield ~ 1+env, random = ~ vm(gen, ped.ainv), data=dat)     m2 <- update(m1, random = ~ idv(env):vm(gen, ped.ainv))     m3 <- update(m2, random = ~ diag(env):vm(gen, ped.ainv))     m4 <- update(m3, random = ~ fa(env,1):vm(gen, ped.ainv))     #summary(m0)$aic     #summary(m4)$aic     ##    df      AIC     ## m0  2 229.4037     ## m1  2 213.2487     ## m2  2 290.6156     ## m3  6 296.8061     ## m4 11 218.1568          p0 <- predict(m0, data=dat, classify=\"gen\")$pvals     p1 <- predict(m1, data=dat, classify=\"gen\")$pvals     p1par <- p1[1:12,]   # parents     p1 <- p1[-c(1:12),]  # remove parents     # Careful!  Need to manually sort the predictions     p0 <- p0[order(as.character(p0$gen)),]     p1 <- p1[order(as.character(p1$gen)),]          # lims <- range(c(p0$pred, p1$pred)) * c(.95,1.05)     lims <- c(6,8.25) # zoom in on the higher-yielding hybrids     plot(p0$predicted.value, p1$predicted.value,          pch=\"\", xlim=lims, ylim=lims, main=\"butron.maize\",          xlab=\"BLUP w/o pedigree\", ylab=\"BLUP with pedigree\")     abline(0,1,col=\"lightgray\")     text(x=p0$predicted.value, y=p1$predicted.value,          p0$gen, cex=.5, srt=-45)     text(x=min(lims), y=p1par$predicted.value, p1par$gen, cex=.5, col=\"red\")     round( cor(p0$predicted.value, p1$predicted.value), 3)     # 0.994     # Including the pedigree provided very little change   }    }"},{"path":"/reference/byers.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Diameters of apples — byers.apple","title":"Diameters of apples — byers.apple","text":"Measurements diameters apples","code":""},{"path":"/reference/byers.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diameters of apples — byers.apple","text":"data frame 480 observations following 6 variables. tree tree, 10 levels apple apple, 24 levels size size apple appleid unique id number apple time time period, 1-6 = (week/2) diameter diameter, inches","code":""},{"path":"/reference/byers.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diameters of apples — byers.apple","text":"Experiment conducted Winchester Agricultural Experiment Station   Virginia Polytechnic Institute State University.   Twentyfive   apples chosen ten apple trees. , 80 apples largest size class, 2.75 inches   diameter greater. diameters apples recorded every two weeks   12-week period.","code":""},{"path":"/reference/byers.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diameters of apples — byers.apple","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil     Sciences. CRC Press, Boca Raton, FL.","code":""},{"path":"/reference/byers.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diameters of apples — byers.apple","text":"","code":"if (FALSE) {      library(agridat)   data(byers.apple)   dat <- byers.apple    libs(lattice)   xyplot(diameter ~ time | factor(appleid), data=dat, type=c('p','l'),          strip=strip.custom(par.strip.text=list(cex=.7)),          main=\"byers.apple\")    # Overall fixed linear trend, plus random intercept/slope deviations   # for each apple.  Observations within each apple are correlated.   libs(nlme)   libs(lucid)   m1 <- lme(diameter ~ 1 + time, data=dat,             random = ~ time|appleid, method='ML',             cor = corAR1(0, form=~ time|appleid),             na.action=na.omit)   vc(m1)   ##       effect   variance   stddev corr   ##  (Intercept) 0.007354   0.08575    NA   ##         time 0.00003632 0.006027 0.83   ##     Residual 0.0004555  0.02134    NA }"},{"path":"/reference/caribbean.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize with fertilization — caribbean.maize","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"Maize fertilization trial Antigua St. Vincent.","code":""},{"path":"/reference/caribbean.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"data frame 612 observations following 7 variables. isle island, 2 levels site site block block plot plot, numeric trt treatment factor ears number ears harvested yield yield kilograms","code":""},{"path":"/reference/caribbean.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"Antigua coral island Caribbean sufficient level   land experiments semi-arid climate, St. Vincent   volcanic level areas uncommon, rainfall can   seasonally heavy. Plots 16 feet 18 feet. central area 12 feet 12 feet   harvested recorded. number ears harvested recorded isle Antigua. digits treatment represent levels nitrogen,   phosphorus, potassium fertilizer, respectively. TEAN site suffered damage goats plot 27, 35 36.   LFAN site suffered damage cattle one boundary--plots 9,   18, 27, 36. Electronic version data retrieved http://lib.stat.cmu.edu/datasets/Andrews/","code":""},{"path":"/reference/caribbean.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"D.F. Andrews .M. Herzberg. 1985. \tData: Collection Problems Many Fields Student \tResearch Worker.   Springer.","code":""},{"path":"/reference/caribbean.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"Also DAAG package data sets antigua, stVincent.","code":""},{"path":"/reference/caribbean.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"","code":"library(agridat) data(caribbean.maize) dat <- caribbean.maize  # Yield and ears are correlated libs(lattice) xyplot(yield~ears|site, dat, ylim=c(0,10), subset=isle==\"Antigua\",        main=\"caribbean.maize - Antiqua\")   # Some locs show large response to nitrogen (as expected), e.g. UISV, OOSV dotplot(trt~yield|site, data=dat, main=\"caribbean.maize treatment response\")   # The pattern is a bit hard to see, so we split the treatment factor # into separate factors, and group sites by island dat <- transform(dat, N=factor(substring(trt,2,2)),                       P=factor(substring(trt,3,3)),                       K=factor(substring(trt,4,4))) dat <- transform(dat, env=paste(substring(isle,1,1),site,sep=\"-\")) # Now we can see the strong N*site interaction bwplot(yield~N|env, dat,        main=\"caribbean.maize\", xlab=\"nitrogen\")"},{"path":"/reference/carlson.germination.html","id":null,"dir":"Reference","previous_headings":"","what":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"Germination alfalfa seeds various salt concentrations","code":""},{"path":"/reference/carlson.germination.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"","code":"data(\"carlson.germination\")"},{"path":"/reference/carlson.germination.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"data frame 120 observations following 3 variables. gen genotype factor, 15 levels germ germination percent, 0-100 nacl salt concentration percent, 0-2","code":""},{"path":"/reference/carlson.germination.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"Data means averaged 5, 10, 15, 20 day counts.   Germination expressed percent -salt control   account differences germination among cultivars.","code":""},{"path":"/reference/carlson.germination.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"Carlson, JR Ditterline, RL Martin, JM Sands, DC Lund,   RE. (1983).   Alfalfa Seed Germination Antibiotic Agar Containing NaCl.   Crop science, 23, 882-885.   https://doi.org/10.2135/cropsci1983.0011183X002300050016x","code":""},{"path":"/reference/carlson.germination.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"","code":"if (FALSE) {  library(agridat) data(carlson.germination) dat <- carlson.germination dat$germ <- dat$germ/100 # Convert to percent  # Separate response curve for each genotype. # Really, we should use a glmm with random int/slope for each genotype m1 <- glm(germ~ 0 + gen*nacl, data=dat, family=quasibinomial)  # Plot data and fitted model libs(latticeExtra) newd <- data.frame(expand.grid(gen=levels(dat$gen), nacl=seq(0,2,length=100))) newd$pred <- predict(m1, newd, type=\"response\") xyplot(germ~nacl|gen, dat, as.table=TRUE, main=\"carlson.germination\",        xlab=\"Percent NaCl\", ylab=\"Fraction germinated\") + xyplot(pred~nacl|gen, newd, type='l', grid=list(h=1,v=0))   # Calculate LD50 values.  Note, Carlson et al used quadratics, not glm. # MASS::dose.p cannot handle multiple slopes, so do a separate fit for # each genotype.  Results are vaguely similar to Carlson table 5. ## libs(MASS) ## for(ii in unique(dat$gen)){ ##   cat(\"\\n\", ii, \"\\n\") ##   mm <- glm(germ ~ 1 + nacl, data=dat, subset=gen==ii, family=quasibinomial(link=\"probit\")) ##   print(dose.p(mm)) ## } ##              Dose         SE ## Anchor    1.445728  0.05750418 ## Apollo    1.305804  0.04951644 ## Baker     1.444153  0.07653989 ## Drylander 1.351201  0.03111795 ## Grimm     1.395735  0.04206377  }"},{"path":"/reference/carmer.density.html","id":null,"dir":"Reference","previous_headings":"","what":"Nonlinear maize yield-density model — carmer.density","title":"Nonlinear maize yield-density model — carmer.density","text":"Nonlinear maize yield-density model.","code":""},{"path":"/reference/carmer.density.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Nonlinear maize yield-density model — carmer.density","text":"data frame 32 observations following 3 variables. gen genotype/hybrid, 8 levels pop population (plants) yield yield, pounds per hill","code":""},{"path":"/reference/carmer.density.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Nonlinear maize yield-density model — carmer.density","text":"Eight single-cross hybrids experiment--Hy2xOh7 WF9xC103   included believed optimum yields relatively   high low populations.  Planted 1963.  Plots thinned   2, 4, 6, 8 plants per hill, giving densities 8, 16, 24, 32 thousand   plants per acre.  Hills rows 40 inches apart.   One hill = 1/4000 acre.   Split-plot design 5 reps, density main plot subplot hybrid.","code":""},{"path":"/reference/carmer.density.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Nonlinear maize yield-density model — carmer.density","text":"S G Carmer J Jackobs (1965).   Exponential Model Predicting Optimum Plant Density Maximum   Corn Yield. Agronomy Journal, 57, 241--244.   https://doi.org/10.2134/agronj1965.00021962005700030003x","code":""},{"path":"/reference/carmer.density.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Nonlinear maize yield-density model — carmer.density","text":"","code":"library(agridat) data(carmer.density) dat <- carmer.density dat$gen <- factor(dat$gen, levels=c('Hy2x0h7','WF9xC103','R61x187-2',                              'WF9x38-11','WF9xB14','C103xB14',                              '0h43xB37','WF9xH60'))  # Separate analysis for each hybrid # Model: y = x * a * k^x.  Table 1 of Carmer and Jackobs. out <- data.frame(a=rep(NA,8), k=NA) preds <- NULL rownames(out) <- levels(dat$gen) newdat <- data.frame(pop=seq(2,8,by=.1)) for(i in levels(dat$gen)){   print(i)   dati <- subset(dat, gen==i)   mi <- nls(yield ~ pop * a * k^pop, data=dati, start=list(a=10,k=1))   out[i, ] <- mi$m$getPars()   # Predicted values   pi <- cbind(gen=i, newdat, pred= predict(mi, newdat=newdat))   preds <- rbind(preds, pi) } #> [1] \"Hy2x0h7\" #> [1] \"WF9xC103\" #> [1] \"R61x187-2\" #> [1] \"WF9x38-11\" #> [1] \"WF9xB14\" #> [1] \"C103xB14\" #> [1] \"0h43xB37\" #> [1] \"WF9xH60\" # Optimum plant density is -1/log(k) out$pop.opt <- -1/log(out$k) round(out, 3) #>               a     k pop.opt #> Hy2x0h7   0.782 0.865   6.875 #> WF9xC103  1.039 0.825   5.192 #> R61x187-2 0.998 0.798   4.441 #> WF9x38-11 1.042 0.825   5.203 #> WF9xB14   1.067 0.806   4.647 #> C103xB14  0.813 0.860   6.653 #> 0h43xB37  0.673 0.862   6.740 #> WF9xH60   0.858 0.854   6.358 ##               a     k pop.opt ## Hy2x0h7   0.782 0.865   6.875 ## WF9xC103  1.039 0.825   5.192 ## R61x187-2 0.998 0.798   4.441 ## WF9x38-11 1.042 0.825   5.203 ## WF9xB14   1.067 0.806   4.647 ## C103xB14  0.813 0.860   6.653 ## 0h43xB37  0.673 0.862   6.740 ## WF9xH60   0.858 0.854   6.358   # Fit an overall fixed-effect with random deviations for each hybrid. libs(nlme) m1 <- nlme(yield ~ pop * a * k^pop,            fixed = a + k ~ 1,            random = a + k ~ 1|gen,            data=dat, start=c(a=10,k=1)) # summary(m1) # Random effect for 'a' probably not needed   libs(latticeExtra) # Plot Data, fixed-effect prediction, random-effect prediction. pdat <- expand.grid(gen=levels(dat$gen), pop=seq(2,8,length=50)) pdat$pred <- predict(m1, pdat) pdat$predf <- predict(m1, pdat, level=0)  xyplot(yield~pop|gen, dat, pch=16, as.table=TRUE,        main=\"carmer.density models\",        key=simpleKey(text=c(\"Data\", \"Fixed effect\",\"Random effect\"),          col=c(\"blue\", \"red\",\"darkgreen\"), columns=3, points=FALSE)) +   xyplot(predf~pop|gen, pdat, type='l', as.table=TRUE, col=\"red\") +   xyplot(pred~pop|gen, pdat, type='l', col=\"darkgreen\", lwd=2)"},{"path":"/reference/cate.potassium.html","id":null,"dir":"Reference","previous_headings":"","what":"Relative cotton yield for different soil potassium concentrations — cate.potassium","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"Relative cotton yield different soil potassium concentrations","code":""},{"path":"/reference/cate.potassium.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"data frame 24 observations following 2 variables. yield Relative yield potassium Soil potassium, ppm","code":""},{"path":"/reference/cate.potassium.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"Cate & Nelson used data determine minimum optimal amount   soil potassium achieve maximum yield. Note, Fig 1 Cate & Nelson match data Table 2.    sort appears points high-concentrations potassium   shifted left truncation point.  Also, calculations   quite match results Table 1.  Perhaps published data   rounded?","code":""},{"path":"/reference/cate.potassium.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"Cate, R.B. Nelson, L.. (1971).   simple statistical procedure partitioning soil test correlation   data two classes.   Soil Science Society America Journal, 35, 658--660.   https://doi.org/10.2136/sssaj1971.03615995003500040048x","code":""},{"path":"/reference/cate.potassium.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"","code":"if (FALSE) {  library(agridat) data(cate.potassium) dat <- cate.potassium names(dat) <- c('y','x')  CateNelson <- function(dat){   dat <- dat[order(dat$x),] # Sort the data by x   x <- dat$x   y <- dat$y    # Create a data.frame to store the results   out <- data.frame(x=NA, mean1=NA, css1=NA, mean2=NA, css2=NA, r2=NA)    css <- function(x) { var(x) * (length(x)-1) }   tcss <- css(y) # Total corrected sum of squares    for(i in 2:(length(y)-2)){     y1 <- y[1:i]     y2 <- y[-(1:i)]      out[i, 'x'] <- x[i]     out[i, 'mean1'] <- mean(y1)     out[i, 'mean2'] <- mean(y2)     out[i, 'css1'] <- css1 <- css(y1)     out[i, 'css2'] <- css2 <- css(y2)     out[i, 'r2'] <-  ( tcss - (css1+css2)) / tcss   }   return(out) }  cn <- CateNelson(dat) ix <- which.max(cn$r2) with(dat, plot(y~x, ylim=c(0,110), xlab=\"Potassium\", ylab=\"Yield\")) title(\"cate.potassium - Cate-Nelson analysis\") abline(v=dat$x[ix], col=\"skyblue\") abline(h=(dat$y[ix] + dat$y[ix+1])/2, col=\"skyblue\")    # another approach with similar results   # https://joe.org/joe/2013october/tt1.php   libs(\"rcompanion\")   cateNelson(dat$x, dat$y, plotit=0) }"},{"path":"/reference/chakravertti.factorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"Factorial experiment rice, 3x5x3x3.","code":""},{"path":"/reference/chakravertti.factorial.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"","code":"data(\"chakravertti.factorial\")"},{"path":"/reference/chakravertti.factorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"data frame 405 observations following 7 variables. block block/field yield yield date planting date, 5 levels gen genotype/variety, 3 levels treat treatment combination, 135 levels seeds number seeds per hole, 3 levels spacing spacing, inches, 3 levels","code":""},{"path":"/reference/chakravertti.factorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"4 treatment factors: 3 Genotypes (varieties): Nehara, Bhasamanik, Bhasakalma 5 Planting dates: Jul 16, Aug 1, Aug 16, Sep 1, Sep 16 3 Spacings: 6 , 9 , 12 inches 3 Seedlings per hole: 1, 2, local method 3x5x3x3=135 treatment combinations.    experiment divided 3 blocks (fields).   Total 405 plots. \"plots sowing date within block grouped   together, position occupied sowing date groups within   Within blocks determined random. grouping together   plots sewing date adopted facilitate cultural   operations. reason, three varieties also laid   compact rows. nine combinations spacings seedling   numbers thrown random within combination date   planting variety shown diagram.\" Note: diagram appears show treatment combinations,   physical layout. Basically, date whole-plot effect, genotype sub-plot effect,   9 treatments (spacings * seedlings) completely randomized   withing sub-plot effect.","code":""},{"path":"/reference/chakravertti.factorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"Chakravertti, S. C. S. S. Bose P. C. Mahalanobis (1936).   complex experiment rice Chinsurah farm, Bengal, 1933-34.   Indian Journal Agricultural Science, 6, 34-51.   https://archive.org/details/.ernet.dli.2015.271737/page/n83/mode/2up","code":""},{"path":"/reference/chakravertti.factorial.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"None","code":""},{"path":"/reference/chakravertti.factorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"","code":"if (FALSE) {    libs(agridat)   data(chakravertti.factorial)   dat <- chakravertti.factorial      # Simple means for each factor. Same as Chakravertti Table 3   group_by(dat, gen)    group_by(dat, date)    group_by(dat, spacing)    group_by(dat, seeds)     libs(HH)   interaction2wt(yield ~ gen + date + spacing + seeds, data=dat, main=\"chakravertti.factorial\")    # ANOVA matches Chakravertti table 2   # This has a very interesting error structure.   # block:date is error term for date   # block:date:gen is error term for gen and date:gen   # Residual is error term for all other tests (not needed inside Error())   dat <- transform(dat,spacing=factor(spacing))   m2 <- aov(yield ~ block + date +                gen + date:gen +                spacing + seeds +               seeds:spacing + date:seeds + date:spacing + gen:seeds + gen:spacing +               date:gen:seeds + date:gen:spacing + date:seeds:spacing + gen:seeds:spacing +               date:gen:seeds:spacing + Error(block/(date + date:gen)),             data=dat)   summary(m2)    }"},{"path":"/reference/chinloy.fractionalfactorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"Fractional factorial sugarcane, 1/3 3^5 = 3x3x3x3x3.","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"","code":"data(\"chinloy.fractionalfactorial\")"},{"path":"/reference/chinloy.fractionalfactorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"data frame 81 observations following 10 variables. yield yield block block row row position col column position trt treatment code n nitrogen treatment, 3 levels 0, 1, 2 p phosphorous treatment, 3 levels 0, 1, 2 k potassium treatment, 3 levels 0, 1, 2 b bagasse treatment, 3 levels 0, 1, 2 m filter press mud treatment, 3 levels 0, 1, 2","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"experiment grown 1949 Worthy Park Estate Jamaica. 5 treatment factors: 3 Nitrogen levels: 0, 3, 6 hundred-weight per acre. 3 Phosphorous levels: 0, 4, 8 hundred-weight per acre. 3 Potassium (muriate potash) levels: 0, 1, 2 hundred-weight   per acre. 3 Bagasse (applied pre-plant) levels: 0, 20, 40 tons per acre. 3 Filter press mud (applied pre-plant) levels: 0, 10, 20 tons per acre. plot 18 yards long 6 yards (3 rows) wide. Plots   arranged nine columns nine, 2-yard space separating plots   along rows two guard rows separating plots across rows. Field width: 6 yards * 9 plots + 4 yards * 8 gaps = 86 yards Field length: 18 yards * 9 plots + 2 yards * 8 gaps = 178 yards","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"T. Chinloy, R. F. Innes D. J. Finney. (1953).   example fractional replication experiment sugar cane manuring.   Journ Agricultural Science, 43, 1-11.   https://doi.org/10.1017/S0021859600044567","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"None","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"","code":"if (FALSE) {  library(agridat) data(chinloy.fractionalfactorial) dat <- chinloy.fractionalfactorial  # Treatments are coded with levels 0,1,2. Make sure they are factors dat <- transform(dat,                  n=factor(n), p=factor(p), k=factor(k), b=factor(b), m=factor(m))  # Experiment layout libs(desplot) desplot(dat, yield ~ col*row,         out1=block, text=trt, shorten=\"no\", cex=0.6,         aspect=178/86,         main=\"chinloy.fractionalfactorial\")  # Main effect and some two-way interactions. These match Chinloy table 6. # Not sure how to code terms like p^2k=b^2m m1 <- aov(yield ~ block + n + p + k + b + m + n:p + n:k + n:b + n:m, dat) anova(m1)  }"},{"path":"/reference/christidis.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Competition between varieties in cotton — christidis.competition","title":"Competition between varieties in cotton — christidis.competition","text":"Competition varieties cotton, measurements taken row.","code":""},{"path":"/reference/christidis.competition.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Competition between varieties in cotton — christidis.competition","text":"","code":"data(\"christidis.competition\")"},{"path":"/reference/christidis.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Competition between varieties in cotton — christidis.competition","text":"data frame 270 observations following 8 variables. plot plot plotrow row within plot block block row row, 1 row col column gen genotype yield yield, kg height height, cm","code":""},{"path":"/reference/christidis.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Competition between varieties in cotton — christidis.competition","text":"Nine genotypes/varieties cotton used variety test.   plots 100 meters long 2.40 meters wide, plot   3 rows 0.80 meters apart. layout RCB 5 blocks, block 2 replicates   every variety (original intention trying 2 seed   treatments). row harvested/weighed separately.   leaves plants dried fallen, mean   height row measured. Christidis found significant competition varieties,   due height differences. Crude analysis. TODO: Find better analysis data incorporates field   trends competition effects, maybe including random effect   border rows genotype pairs (neighbors)?","code":""},{"path":"/reference/christidis.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Competition between varieties in cotton — christidis.competition","text":"Christidis, Basil G (1935).   Intervarietal competition yield trials cotton.   Journal Agricultural Science, 25, 231-237. Table 1.   https://doi.org/10.1017/S0021859600009710","code":""},{"path":"/reference/christidis.competition.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Competition between varieties in cotton — christidis.competition","text":"None","code":""},{"path":"/reference/christidis.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Competition between varieties in cotton — christidis.competition","text":"","code":"if (FALSE) {  library(agridat) data(christidis.competition) dat <- christidis.competition  # Match Christidis Table 2 means # aggregate(yield ~ gen, aggregate(yield ~ gen+plot, dat, sum), mean)  # Each RCB block has 2 replicates of each genotype # with(dat, table(block,gen))  libs(lattice)  # Tall plants yield more # xyplot(yield ~ height|gen, data=dat)  # Huge yield variation across field. Also heterogeneous variance. xyplot(yield ~ col, dat, group=gen, auto.key=list(columns=5),        main=\"christidis.competition\")   libs(mgcv) if(is.element(\"package:gam\", search())) detach(\"package:gam\") # Simple non-competition model to remove main effects m1 <- gam(yield ~ gen + s(col), data=dat) p1 <- as.data.frame(predict(m1, type=\"terms\")) names(p1) <- c('geneff','coleff') dat2 <- cbind(dat, p1) dat2 <- transform(dat2, res=yield-geneff-coleff) libs(lattice) xyplot(res ~  col, data=dat2, group=gen,        main=\"christidis.competition - residuals\")  }"},{"path":"/reference/christidis.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — christidis.cotton.uniformity","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"Uniformity trial cotton Greece, 1938","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"","code":"data(\"christidis.cotton.uniformity\")"},{"path":"/reference/christidis.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"data frame 1024 observations following 4 variables. col column row row yield yield, kg/unit block block factor","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"experiment conducted 1938 Sindos Greek Cotton Research Institute. block consisted 20 rows, 1 meter apart 66 meters long. Two   rows side 1 meter end removed   borders. row divided 4 meter-lengths harvested   separately.  4 blocks, oriented 0, 30, 60, 90 degrees. block contained 16 rows, 64 meters long. Field width: 16 units * 4 m = 64 m Field depth: 16 rows * 1 m = 16 m","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"Christidis, B. G. (1939).   Variability Plots Various Shapes Affected Plot Orientation.   Empire Journal Experimental Agriculture 7: 330-342. Table 1.","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"None","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(christidis.cotton.uniformity) dat <- christidis.cotton.uniformity    # Match the mean yields in table 2. Not sure why '16' is needed # sapply(split(dat$yield, dat$block), mean)*16    libs(desplot) dat$yld <- dat$yield/4*1000 # re-scale to match Christidis fig 1 desplot(dat, yld ~ col*row|block,         flip=TRUE, aspect=(16)/(64),         main=\"christidis.cotton.uniformity\")  }"},{"path":"/reference/christidis.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — christidis.wheat.uniformity","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"Uniformity trial wheat Cambridge, UK 1931.","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"","code":"data(\"christidis.wheat.uniformity\")"},{"path":"/reference/christidis.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"data frame 288 observations following 3 variables. row row col column yield yield","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"Two blocks, 24 rows . block , 90-foot row divided 12 units, unit 7.5 feet long. Rows 8 inches wide. Field width: 12 units * 7.5 feet = 90 feet Field length: 24 rows * 8 inches = 16 feet","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"Christidis, Basil G (1931).   importance shape plots field experimentation.   Journal Agricultural Science, 21, 14-37. Table VI, p. 28.   https://dx.doi.org/10.1017/S0021859600007942","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"None","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(christidis.wheat.uniformity) dat <- christidis.wheat.uniformity    # sum(dat$yield) # Matches Christidis     libs(desplot)  desplot(dat, yield ~  col*row,          flip=TRUE, aspect=16/90, # true aspect          main=\"christidis.wheat.uniformity\")  }"},{"path":"/reference/cleveland.soil.html","id":null,"dir":"Reference","previous_headings":"","what":"Soil resistivity in a field — cleveland.soil","title":"Soil resistivity in a field — cleveland.soil","text":"Soil resistivity field","code":""},{"path":"/reference/cleveland.soil.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soil resistivity in a field — cleveland.soil","text":"data frame 8641 observations following 5 variables. northing y ordinate easting x ordinate resistivity Soil resistivity, ohms .ns Indicator north/south track track Track number","code":""},{"path":"/reference/cleveland.soil.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soil resistivity in a field — cleveland.soil","text":"Resistivity related soil salinity. Electronic version data retrieved   http://lib.stat.cmu.edu/datasets/Andrews/ Cleaned version Luke Tierney   https://homepage.stat.uiowa.edu/~luke/classes/248/examples/soil","code":""},{"path":"/reference/cleveland.soil.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soil resistivity in a field — cleveland.soil","text":"William Cleveland, (1993).   Visualizing Data.","code":""},{"path":"/reference/cleveland.soil.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soil resistivity in a field — cleveland.soil","text":"","code":"if (FALSE) {    library(agridat)   data(cleveland.soil)   dat <- cleveland.soil    # Similar to Cleveland fig 4.64   ## libs(latticeExtra)   ## redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   ## levelplot(resistivity ~ easting + northing, data = dat,   ##           col.regions=redblue,   ##           panel=panel.levelplot.points,   ##           aspect=2.4, xlab= \"Easting (km)\", ylab= \"Northing (km)\",   ##           main=\"cleveland\")      # 2D loess plot. Cleveland fig 4.68   sg1 <- expand.grid(easting = seq(.15, 1.410, by = .02),                      northing = seq(.150, 3.645, by = .02))   lo1 <- loess(resistivity~easting*northing, data=dat, span = 0.1, degree = 2)   fit1 <- predict(lo1, sg1)   libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   levelplot(fit1 ~ sg1$easting * sg1$northing,             col.regions=redblue,             cuts = 9,             aspect=2.4, xlab = \"Easting (km)\", ylab = \"Northing (km)\",             main=\"cleveland.soil - 2D smooth of Resistivity\")      # 3D loess plot with data overlaid   libs(rgl)   bg3d(color = \"white\")   clear3d()   points3d(dat$easting, dat$northing, dat$resistivity / 100,            col = rep(\"gray50\", nrow(dat)))   rgl::surface3d(seq(.15, 1.410, by = .02),                  seq(.150, 3.645, by = .02),                  fit1/100, alpha=0.9, col=rep(\"wheat\", length(fit1)),                  front=\"fill\", back=\"fill\")   close3d() }"},{"path":"/reference/cochran.beets.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"Yield number plants sugarbeet fertilizer experiment.","code":""},{"path":"/reference/cochran.beets.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"","code":"data(\"cochran.beets\")"},{"path":"/reference/cochran.beets.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"data frame 42 observations following 4 variables. fert fertilizer treatment block block yield yield, tons/acres plants number plants per plot","code":""},{"path":"/reference/cochran.beets.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"Yield (tons/acre) number beets per plot.  Fertilizer   treatments combine superphosphate (P), muriate potash (K),   sodium nitrate (N).","code":""},{"path":"/reference/cochran.beets.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"George Snedecor (1946).   Statisitcal Methods, 4th ed. Table 12.13, p. 332.","code":""},{"path":"/reference/cochran.beets.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"H. Fairfield Smith (1957).   Interpretation Adjusted Treatment Means Regressions Analysis   Covariance.   Biometrics, 13, 282-308.   https://doi.org/10.2307/2527917","code":""},{"path":"/reference/cochran.beets.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"","code":"if (FALSE) {  library(agridat) data(cochran.beets) dat = cochran.beets  # P has strong effect libs(lattice) xyplot(yield ~ plants|fert, dat, main=\"cochran.beets\")   }"},{"path":"/reference/cochran.bib.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"Balanced incomplete block design corn","code":""},{"path":"/reference/cochran.bib.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"data frame 52 observations following 3 variables. loc location/block, 13 levels gen genotype/line, 13 levels yield yield, pounds/plot","code":""},{"path":"/reference/cochran.bib.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"Incomplete block design.  loc/block 4 genotypes/lines.   blocks planted different locations. Conducted 1943 North Carolina.","code":""},{"path":"/reference/cochran.bib.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"North Carolina Agricultural Experiment Station,   United States Department Agriculture.","code":""},{"path":"/reference/cochran.bib.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"Cochran, W.G. Cox, G.M. (1957),   Experimental Designs, 2nd ed., Wiley Sons, New York, p. 448.","code":""},{"path":"/reference/cochran.bib.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"","code":"if (FALSE) {  library(agridat)  data(cochran.bib) dat <- cochran.bib  # Show the incomplete-block structure libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield~loc*gen, dat,           col.regions=redblue,           xlab=\"loc (block)\", main=\"cochran.bib - incomplete blocks\")  with(dat, table(gen,loc)) rowSums(as.matrix(with(dat, table(gen,loc)))) colSums(as.matrix(with(dat, table(gen,loc))))  m1 = aov(yield ~ gen + Error(loc), data=dat) summary(m1)  libs(nlme) m2 = lme(yield ~ -1 + gen, data=dat, random=~1|loc)  }"},{"path":"/reference/cochran.crd.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato scab infection with sulfur treatments — cochran.crd","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"Potato scab infection sulfur treatments","code":""},{"path":"/reference/cochran.crd.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"data frame 32 observations following 5 variables. inf infection percent trt treatment factor row row col column","code":""},{"path":"/reference/cochran.crd.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"experiment conducted investigate effect sulfur   controlling scab disease potatoes. seven treatments.   Control, plus spring fall application 300, 600, 1200 pounds/acre   sulfur.  response variable infection percent surface   area covered scab.  completely randomized design used 8   replications control 4 replications treatments. Although original analysis show significant differences   sulfur treatments, including polynomial trend model   uncovered significant differences (Tamura, 1988).","code":""},{"path":"/reference/cochran.crd.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"W.G. Cochran G. Cox, 1957.  Experimental Designs, 2nd   ed. John Wiley, New York.","code":""},{"path":"/reference/cochran.crd.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"Tamura, R.N. Nelson, L.. Naderman, G.C., (1988).   investigation validity usefulness   trend analysis field plot data.   Agronomy Journal, 80, 712-718. https://doi.org/10.2134/agronj1988.00021962008000050003x","code":""},{"path":"/reference/cochran.crd.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"","code":"if (FALSE) {  library(agridat) data(cochran.crd) dat <- cochran.crd  # Field plan libs(desplot) desplot(dat, inf~col*row,         text=trt, cex=1, # aspect unknown         main=\"cochran.crd\")  # CRD anova.  Table 6 of Tamura 1988 contrasts(dat$trt) <- cbind(c1=c(1,1,1,-6,1,1,1),   # Control vs Sulf                             c2=c(-1,-1,-1,0,1,1,1)) # Fall vs Sp m1 <- aov(inf ~ trt, data=dat) anova(m1) summary(m1, split=list(trt=list(\"Control vs Sulf\"=1, \"Fall vs Spring\"=2)))  # Quadratic polynomial for columns...slightly different than Tamura 1988 m2 <- aov(inf ~ trt + poly(col,2), data=dat) anova(m2) summary(m2, split=list(trt=list(\"Control vs Sulf\"=1, \"Fall vs Spring\"=2)))  }"},{"path":"/reference/cochran.eelworms.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"Counts eelworms fumigant treatments","code":""},{"path":"/reference/cochran.eelworms.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"data frame 48 observations following 7 variables. block block factor, 4 levels row row col column fumigant fumigant factor dose dose, Numeric 0,1,2.  Maybe factor? initial count eelworms pre-treatment final count eelworms post-treatment grain grain yield pounds straw straw yield pounds weeds ratio weeds total oats","code":""},{"path":"/reference/cochran.eelworms.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"soil fumigation experiment Spring Oats, conducted 1935. plot 30 links x 41.7 links, clear side   plot specific length. Treatment codes: Con = Control, Chl = Chlorodinitrobenzen, Cym =   Cymag, Car = Carbon Disulphide jelly, See = Seekay. Experiment conducted 1935 Rothamsted Experiment Station.    early March 400 grams soil (4 x 100g) sampled number   eelworm cysts counted.  Fumigants added soil, oats   sown later harvested.  October, plots   sampled final count cysts recorded. Rothamsted report concludes \"Car\" \"Cym\" produced higher   yields, due partly nitrogen fumigant, \"Chl\"   decreased yield.  fumigants reduced weeds. crop   'unusually weedy'. \"Car\" \"See\" decreased number eelworm   cysts soil. original data can found Rothamsted Report. report   notes position blocks field slightly different   shown. experiment plan shown Bailey (2008, p. 73), shows columns 9-11   shifted slightly upward. clear . Thanks U.Genschel identifying typo.","code":""},{"path":"/reference/cochran.eelworms.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"Cochran Cox, 1950.   Experimental Designs. Table 3.1.","code":""},{"path":"/reference/cochran.eelworms.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"R. . Bailey (2008).   Design Comparative Experiments. Cambridge. Experiments Rothamsted (1936).   Report 1935, Rothamsted Research. pp 174 - 193.   https://doi.org/10.23637/ERADOC-1-67","code":""},{"path":"/reference/cochran.eelworms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"","code":"if (FALSE) {    library(agridat)   data(cochran.eelworms)   dat <- cochran.eelworms    libs(lattice)   splom(dat[ , 5:10],         group=dat$fumigant, auto.key=TRUE,         main=\"cochran.eelworms\")      libs(desplot)   desplot(dat, fumigant~col*row, text=dose, flip=TRUE, cex=2)      # Very strong spatial trends   desplot(dat, initial ~ col*row,           flip=TRUE, # aspect unknown           main=\"cochran.eelworms\")     # final counts are strongly related to initial counts   libs(lattice)   xyplot(final~initial|factor(dose), data=dat, group=fumigant,          main=\"cochran.eelworms - by dose (panel) & fumigant\",          xlab=\"Initial worm count\",          ylab=\"Final worm count\", auto.key=list(columns=5))      # One approach...log transform, use 'initial' as covariate, create 9 treatments   dat <- transform(dat, trt=factor(paste0(fumigant, dose)))   m1 <- aov(log(final) ~ block + trt + log(initial), data=dat)   anova(m1)  }"},{"path":"/reference/cochran.factorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"Factorial experiment beans, 2x2x2x2.","code":""},{"path":"/reference/cochran.factorial.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"","code":"data(\"cochran.factorial\")"},{"path":"/reference/cochran.factorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"data frame 32 observations following 4 variables. rep rep factor block block factor trt treatment factor, 16 levels yield yield (pounds) d dung treatment, 2 levels n nitrogen treatment, 2 levels p phosphorous treatment, 2 levels k potassium treatment, 2 levels","code":""},{"path":"/reference/cochran.factorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"Conducted Rothamsted Experiment Station 1936. 4 treatment factors: 2 d dung levels: None, 10 tons/acre. 2 n nitrochalk levels: None, 0.4 hundredweight nitrogen per acre. 2 p superphosphate levels: None, 0.6 hundredweight per acre 2 k muriate potash levels: None, 1 hundredweight K20 per acres. response variable yield beans.","code":""},{"path":"/reference/cochran.factorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"Cochran, W.G. Cox, G.M. (1957),   Experimental Designs, 2nd ed., Wiley Sons, New York, p. 160.","code":""},{"path":"/reference/cochran.factorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"","code":"if (FALSE) {  library(agridat) data(cochran.factorial) dat <- cochran.factorial  # Ensure factors dat <- transform(dat, d=factor(d), n=factor(n), p=factor(p), k=factor(k))  # Cochran table 6.5. m1 <- lm(yield ~ rep * block + (d+n+p+k)^3, data=dat) anova(m1)   libs(FrF2) aliases(m1) MEPlot(m1, select=3:6,        main=\"cochran.factorial - main effects plot\")  }"},{"path":"/reference/cochran.latin.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square design in wheat — cochran.latin","title":"Latin square design in wheat — cochran.latin","text":"Six wheat plots sampled six operators shoot heights   measured. operators sampled plots six ordered sequences.   dependent variate difference measured   height true height plot.","code":""},{"path":"/reference/cochran.latin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square design in wheat — cochran.latin","text":"data frame 36 observations following 4 variables. row row col column operator operator factor diff difference measured height true height","code":""},{"path":"/reference/cochran.latin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square design in wheat — cochran.latin","text":"Cochran, W.G. Cox, G.M. (1957),   Experimental Designs, 2nd ed., Wiley Sons, New York.","code":""},{"path":"/reference/cochran.latin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square design in wheat — cochran.latin","text":"","code":"if (FALSE) {  library(agridat) data(cochran.latin) dat <- cochran.latin  libs(desplot) desplot(dat, diff~col*row,         text=operator, cex=1, # aspect unknown         main=\"cochran.latin\")   dat <- transform(dat, rf=factor(row), cf=factor(col)) aov.dat <- aov(diff ~ operator + Error(rf*cf), dat) summary(aov.dat) model.tables(aov.dat, type=\"means\") }"},{"path":"/reference/cochran.lattice.html","id":null,"dir":"Reference","previous_headings":"","what":"Balanced lattice experiment in cotton — cochran.lattice","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"Balanced lattice experiment cotton","code":""},{"path":"/reference/cochran.lattice.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"","code":"data(\"cochran.lattice\")"},{"path":"/reference/cochran.lattice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"data frame 80 observations following 5 variables. y percent affected flower buds rep replicate row row col column trt treatment factor","code":""},{"path":"/reference/cochran.lattice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"experiment balanced lattice square 16 treatments 4x4   layout 5 replicates.  treatments applied cotton   plants.  plot ten rows wide 70 feet long   (1/18 acre).  (Estimated plot width 34.5 feet.)   Data collected middle 4 rows.   data percentages squares showing attack boll weevils.   'square' name given young flower bud. plot orientation clear.","code":""},{"path":"/reference/cochran.lattice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"William G. Cochran, Gertrude M. Cox. Experimental Designs, 2nd   Edition. Page 490. Originally : F. M. Wadley (1946).   Incomplete block designs insect population problems.   J. Economic Entomology, 38, 651--654.","code":""},{"path":"/reference/cochran.lattice.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"Walter Federer.   Combining Standard Block Analyses Spatial Analyses Random   Effects Model. Cornell Univ Tech Report BU-1373-MA.   https://hdl.handle.net/1813/31971","code":""},{"path":"/reference/cochran.lattice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"","code":"if (FALSE) {  library(agridat) data(cochran.lattice) dat <- cochran.lattice  libs(desplot) desplot(dat, y~row*col|rep,         text=trt, # aspect unknown, should be 2 or .5          main=\"cochran.lattice\")   # Random rep,row,column model often used by Federer libs(lme4) dat <- transform(dat, rowf=factor(row), colf=factor(col)) m1 <-  lmer(y ~ trt + (1|rep) + (1|rep:row) + (1|rep:col), data=dat) summary(m1)  }"},{"path":"/reference/cochran.wireworms.html","id":null,"dir":"Reference","previous_headings":"","what":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"Wireworms controlled fumigants latin square","code":""},{"path":"/reference/cochran.wireworms.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"data frame 25 observations following 4 variables. row row col column trt fumigant treatment, 5 levels worms count wireworms per plot","code":""},{"path":"/reference/cochran.wireworms.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"Plots approximately 22 cm 13 cm.  Layout experiment   latin square.  number wireworms plot counted,   following soil fumigation previous year.","code":""},{"path":"/reference/cochran.wireworms.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"W. G. Cochran (1938).   difficulties statistical analysis replicated experiments.   Empire Journal Experimental Agriculture, 6, 157--175.","code":""},{"path":"/reference/cochran.wireworms.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"Ron Snee (1980). Graphical Display Means.   American Statistician, 34, 195-199.   https://www.jstor.org/stable/2684060    https://doi.org/10.1080/00031305.1980.10483028 W. Cochran (1940). analysis variance experimental errors   follow Poisson binomial laws.   Annals Mathematical Statistics, 11, 335-347.   https://www.jstor.org/stable/2235680 G W Snedecor W G Cochran, 1980. Statistical Methods,   Iowa State University Press.  Page 288.","code":""},{"path":"/reference/cochran.wireworms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"","code":"if (FALSE) {  library(agridat) data(cochran.wireworms) dat <- cochran.wireworms  libs(desplot) desplot(dat, worms ~ col*row,         text=trt, cex=1, # aspect unknown         main=\"cochran.wireworms\")  # Trt K is effective, but not the others.  Really, this says it all. libs(lattice) bwplot(worms ~ trt, dat, main=\"cochran.wireworms\", xlab=\"Treatment\")  # Snedecor and Cochran do ANOVA on sqrt(x+1). dat <- transform(dat, rowf=factor(row), colf=factor(col)) m1 <- aov(sqrt(worms+1) ~ rowf + colf + trt, data=dat) anova(m1)  # Instead of transforming, use glm m2 <- glm(worms ~ trt + rowf + colf, data=dat, family=\"poisson\") anova(m2)  # GLM with random blocking. libs(lme4) m3 <- glmer(worms ~ -1 +trt +(1|rowf) +(1|colf), data=dat, family=\"poisson\") summary(m3) ## Fixed effects: ##      Estimate Std. Error z value Pr(>|z|)     ## trtK   0.1393     0.4275   0.326    0.745     ## trtM   1.7814     0.2226   8.002 1.22e-15 *** ## trtN   1.9028     0.2142   8.881  < 2e-16 *** ## trtO   1.7147     0.2275   7.537 4.80e-14 ***  }"},{"path":"/reference/connolly.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato yields in single-drill plots — connolly.potato","title":"Potato yields in single-drill plots — connolly.potato","text":"Potato yields single-drill plots","code":""},{"path":"/reference/connolly.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Potato yields in single-drill plots — connolly.potato","text":"","code":"data(\"connolly.potato\")"},{"path":"/reference/connolly.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato yields in single-drill plots — connolly.potato","text":"data frame 80 observations following 6 variables. rep block gen variety row row col column yield yield, kg/ha matur maturity group","code":""},{"path":"/reference/connolly.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato yields in single-drill plots — connolly.potato","text":"Connolly et el use data illustrate yield can affected   competition neighboring plots. data uses M1, M2, M3 maturity, Connolly et al use   FE (first early), SE (second early) M (maincrop). trial 20 sections, independent row 20   drills.  data four reps single-drill plots   sections 1, 6, 11, 16. neighbor covariate plot defined average   plots left right.  drills edge trial,   covariate average one neighboring plot yield   section (.e. rep) mean. interesting fit model uses differences   maturity plot neighbor actual covariate. https://doi.org/10.1111/j.1744-7348.1993.tb04099.x Used permission Iain Currie.","code":""},{"path":"/reference/connolly.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato yields in single-drill plots — connolly.potato","text":"Connolly, T Currie, ID Bradshaw, JE McNicol, JW. (1993).   Inter-plot competition yield trials potatoes   Solanum tuberosum L. single-drill plots.   Annals Applied Biology, 123, 367-377.","code":""},{"path":"/reference/connolly.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato yields in single-drill plots — connolly.potato","text":"","code":"library(agridat) data(connolly.potato) dat <- connolly.potato  # Field plan libs(desplot) desplot(dat, yield~col*row,         out1=rep, # aspect unknown         main=\"connolly.potato yields (reps not contiguous)\")    # Later maturities are higher yielding libs(lattice) bwplot(yield~matur, dat, main=\"connolly.potato yield by maturity\")   # Observed raw means. Matches Connolly table 2. mn <- aggregate(yield~gen, data=dat, FUN=mean) mn[rev(order(mn$yield)),] #>    gen  yield #> 8  V08 16.200 #> 19 V19 14.450 #> 10 V10 13.925 #> 12 V12 13.500 #> 7  V07 13.300 #> 20 V20 12.975 #> 14 V14 12.975 #> 6  V06 12.625 #> 11 V11 12.575 #> 16 V16 11.900 #> 3  V03 11.650 #> 9  V09 11.500 #> 1  V01 11.275 #> 18 V18 10.650 #> 2  V02 10.325 #> 17 V17 10.200 #> 15 V15 10.125 #> 13 V13 10.050 #> 4  V04  9.425 #> 5  V05  9.275  # Create a covariate which is the average of neighboring plot yields libs(reshape2) mat <- acast(dat, row~col, value.var='yield') mat2 <- matrix(NA, nrow=4, ncol=20) mat2[,2:19] <- (mat[ , 1:18] + mat[ , 3:20])/2 mat2[ , 1] <- (mat[ , 1] + apply(mat, 1, mean))/2 mat2[ , 20] <- (mat[ , 20] + apply(mat, 1, mean))/2 dat2 <- melt(mat2) colnames(dat2) <- c('row','col','cov') dat <- merge(dat, dat2) # xyplot(yield ~ cov, data=dat, type=c('p','r'))  # Connolly et al fit a model with avg neighbor yield as a covariate m1 <- lm(yield ~ 0 + gen + rep + cov, data=dat) coef(m1)['cov'] # = -.303  (Connolly obtained -.31) #>        cov  #> -0.3030545   # Block names and effects bnm <- c(\"R1\",\"R2\",\"R3\",\"R4\") beff <- c(0, coef(m1)[c('repR2','repR3','repR4')]) # Variety names and effects vnm <- paste0(\"V\", formatC(1:20, width=2, flag='0')) veff <- coef(m1)[1:20]  # Adjust yield for variety and block effects dat <- transform(dat, yadj = yield - beff[match(rep,bnm)]                 - veff[match(gen,vnm)])  # Similar to Connolly Fig 1.  Point pattern doesn't quite match xyplot(yadj~cov, data=dat, type=c('p','r'),        main=\"connolly.potato\",        xlab=\"Avg yield of nearest neighbors\",        ylab=\"Yield, adjusted for variety and block effects\")"},{"path":"/reference/coombs.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"Uniformity trial rice Malaysia","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"","code":"data(\"coombs.rice.uniformity\")"},{"path":"/reference/coombs.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"data frame 54 observations following 3 variables. row row col column yield yield gantangs per plot","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"Estimated harvest date 1915 earlier. Field length, 18 plots * 1/2 chain. Field width, 3 plots * 1/2 chain.","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"Coombs, G. E. J. Grantham (1916).   Field Experiments Interpretation results.   Agriculture Bulletin Federated Malay States, 7.   https://www.google.com/books/edition/The_Agricultural_Bulletin_of_the_Federat/M2E4AQAAMAAJ","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"None","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(coombs.rice.uniformity)   dat <- coombs.rice.uniformity    # Data check. Matches Coombs 709.4   # sum(dat$yield)    # There are an excess number of 12s and 14s in the yield   libs(lattice)   qqmath( ~ yield, dat) # weird      libs(desplot)   desplot(dat, yield ~ col*row,           main=\"coombs.rice.uniformity\",           flip=TRUE, aspect=(18 / 3)) }"},{"path":"/reference/cornelius.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"Maize yields 9 cultivars 20 locations.","code":""},{"path":"/reference/cornelius.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"","code":"data(\"cornelius.maize\")"},{"path":"/reference/cornelius.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"data frame 180 observations following 3 variables. env environment factor, 20 levels gen genotype/cultivar, 9 levels yield yield, kg/ha","code":""},{"path":"/reference/cornelius.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"Cell means (kg/hectare) CIMMYT EVT16B maize yield trial.","code":""},{"path":"/reference/cornelius.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"P L Cornelius J Crossa M S Seyedsadr. (1996).   Statistical Tests Estimators Multiplicative Models   Genotype--Environment Interaction.   Book: Genotype--Environment Interaction. Pages 199-234.","code":""},{"path":"/reference/cornelius.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"Forkman, Johannes Piepho, Hans-Peter. (2014).   Parametric bootstrap methods testing multiplicative terms GGE   AMMI models. Biometrics, 70(3), 639-647.   https://doi.org/10.1111/biom.12162","code":""},{"path":"/reference/cornelius.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"","code":"if (FALSE) {  library(agridat) data(cornelius.maize) dat <- cornelius.maize  # dotplot(gen~yield|env,dat) # We cannot compare genotype yields easily # Subtract environment mean from each observation libs(reshape2) mat <- acast(dat, gen~env) mat <- scale(mat, scale=FALSE) dat2 <- melt(mat) names(dat2) <- c('gen','env','yield') libs(lattice) bwplot(yield ~ gen, dat2,        main=\"cornelius.maize - environment centered yields\")  if(0){ # This reproduces the analysis of Forkman and Piepho.  test.pc <- function(Y0, type=\"AMMI\", n.boot=10000, maxpc=6) {    # Test the significance of Principal Components in GGE/AMMI    # Singular value decomposition of centered/double-centered Y   Y <- sweep(Y0, 1, rowMeans(Y0)) # subtract environment means   if(type==\"AMMI\") {     Y <- sweep(Y, 2, colMeans(Y0)) # subtract genotype means     Y <- Y + mean(Y0)   }   lam <- svd(Y)$d    # Observed value of test statistic.   # t.obs[k] is the proportion of variance explained by the kth term out of   # the k...M terms, e.g. t.obs[2] is lam[2]^2 / sum(lam[2:M]^2)   t.obs <- { lam^2/rev(cumsum(rev(lam^2))) } [1:(M-1)]   t.boot <- matrix(NA, nrow=n.boot, ncol=M-1)    # Centering rows/columns reduces the rank by 1 in each direction.   I <- if(type==\"AMMI\") nrow(Y0)-1 else nrow(Y0)   J <- ncol(Y0)-1   M <- min(I, J) # rank of Y, maximum number of components   M <- min(M, maxpc) # Optional step: No more than 5 components    for(K in 0:(M-2)){ # 'K' multiplicative components in the svd      for(bb in 1:n.boot){       E.b <- matrix(rnorm((I-K) * (J-K)), nrow = I-K, ncol = J-K)       lam.b <- svd(E.b)$d       t.boot[bb, K+1] <- lam.b[1]^2 / sum(lam.b^2)     }    }    # P-value for each additional multiplicative term in the SVD.   # P-value is the proportion of time bootstrap values exceed t.obs   colMeans(t.boot > matrix(rep(t.obs, n.boot), nrow=n.boot, byrow=TRUE)) }  dat <- cornelius.maize  # Convert to matrix format libs(reshape2) dat <- acast(dat, env~gen, value.var='yield')  ## R> test.pc(dat,\"AMMI\") ## [1] 0.0000 0.1505 0.2659 0.0456 0.1086 # Forkman: .00 .156 .272 .046 .111  ## R> test.pc(dat,\"GGE\") ## [1] 0.0000 0.2934 0.1513 0.0461 0.2817 # Forkman: .00 .296 .148 .047 .285  } }"},{"path":"/reference/corsten.interaction.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn — corsten.interaction","title":"Multi-environment trial of corn — corsten.interaction","text":"data yield (kg/acre) 20 genotypes corn 7   locations.","code":""},{"path":"/reference/corsten.interaction.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn — corsten.interaction","text":"data frame 140 observations following 3 variables. gen genotype, 20 levels loc location, 7 levels yield yield, kg/acre","code":""},{"path":"/reference/corsten.interaction.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn — corsten.interaction","text":"data used Corsten & Denis (1990) illustrate two-way   clustering minimizing interaction sum squares. paper, labels location dendrogram slight   typo.  order loc labels shown 1 2 3 4 5 6 7.   correct order loc labels 1 2 4 5 6 7 3. Used permission Jean-Baptiste Denis.","code":""},{"path":"/reference/corsten.interaction.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn — corsten.interaction","text":"L C Corsten J B Denis, (1990).   Structuring Interaction Two-Way Tables Clustering.   Biometrics, 46, 207--215. Table 1.   https://doi.org/10.2307/2531644","code":""},{"path":"/reference/corsten.interaction.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn — corsten.interaction","text":"","code":"if (FALSE) {  library(agridat) data(corsten.interaction) dat <- corsten.interaction  libs(reshape2) m1 <- melt(dat, measure.var='yield') dmat <- acast(m1, loc~gen)  # Corsten (1990) uses this data to illustrate simultaneous row and # column clustering based on interaction sums-of-squares. # There is no (known) function in R to reproduce this analysis # (please contact the package maintainer if this is not true). # For comparison, the 'heatmap' function clusters the rows and # columns _independently_ of each other. heatmap(dmat, main=\"corsten.interaction\")  }"},{"path":"/reference/cox.stripsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"Strip-split-plot barley fertilizer, calcium, soil factors.","code":""},{"path":"/reference/cox.stripsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"data frame 96 observations following 5 variables. rep replicate, 4 levels soil soil, 3 levels fert fertilizer, 4 levels calcium calcium, 2 levels yield yield winter barley","code":""},{"path":"/reference/cox.stripsplit.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"Four different fertilizer treatments laid vertical   strips, split subplots different levels   calcium. Soil type stripped across split-plot experiment,   entire experiment replicated three times. Sometimes called split-block design.","code":""},{"path":"/reference/cox.stripsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"Comes notes Gertrude Cox . Rotti.","code":""},{"path":"/reference/cox.stripsplit.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"SAS/STAT(R) 9.2 User's Guide, Second Edition.   Example 23.5 Strip-Split Plot.   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm#statug_anova_sect030.htm","code":""},{"path":"/reference/cox.stripsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"","code":"if (FALSE) {  library(agridat) data(cox.stripsplit) dat <- cox.stripsplit  # Raw means # aggregate(yield ~ calcium, data=dat, mean) # aggregate(yield ~ soil, data=dat, mean) # aggregate(yield ~ calcium, data=dat, mean)  libs(HH) interaction2wt(yield ~ rep + soil + fert + calcium, dat,                x.between=0, y.between=0,                main=\"cox.stripsplit\")  # Traditional AOV m1 <- aov(yield~ fert*calcium*soil +           Error(rep/(fert+soil+calcium:fert+soil:fert)),           data=dat) summary(m1)  # With balanced data, the following are all basically identical  libs(lme4) # The 'rep:soil:fert' term causes problems...so we drop it. m2 <- lmer(yield ~ fert*soil*calcium + (1|rep) + (1|rep:fert) +              (1|rep:soil) + (1|rep:fert:calcium), data=dat)   if(0){   # afex uses Kenword-Rogers approach for denominator d.f.   libs(afex)   mixed(yield ~ fert*soil*calcium + (1|rep) + (1|rep:fert) +           (1|rep:soil) + (1|rep:fert:calcium) + (1|rep:soil:fert), data=dat,         control=lmerControl(check.nobs.vs.rankZ=\"ignore\"))   ##              Effect      stat ndf     ddf F.scaling p.value   ## 1       (Intercept) 1350.8113   1  3.0009         1  0.0000   ## 2              fert    3.5619   3  9.0000         1  0.0604   ## 3              soil    3.4659   2  6.0000         1  0.0999   ## 4           calcium    1.8835   1 12.0000         1  0.1950   ## 5         fert:soil    1.2735   6 18.0000         1  0.3179   ## 6      fert:calcium    4.4457   3 12.0000         1  0.0255   ## 7      soil:calcium    0.2494   2 24.0000         1  0.7813   ## 8 fert:soil:calcium    0.3504   6 24.0000         1  0.9027 }  }"},{"path":"/reference/cramer.cucumber.html","id":null,"dir":"Reference","previous_headings":"","what":"Cucumber yields and quantitative traits — cramer.cucumber","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"Cucumber yields quantitative traits","code":""},{"path":"/reference/cramer.cucumber.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"","code":"data(\"cramer.cucumber\")"},{"path":"/reference/cramer.cucumber.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"data frame 24 observations following 9 variables. cycle cycle rep replicate plants plants per plot flowers number pistillate flowers branches number branches leaves number leaves totalfruit total fruit number culledfruit culled fruit number earlyfruit early fruit number","code":""},{"path":"/reference/cramer.cucumber.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"data used illustrate path analysis correlations   phenotypic traits. Used permission Christopher Cramer.","code":""},{"path":"/reference/cramer.cucumber.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"Christopher S. Cramer, Todd C. Wehner, Sandra B. Donaghy. 1999.   Path Coefficient Analysis Quantitative Traits.   : Handbook Formulas Software Plant Geneticists   Breeders, page 89.","code":""},{"path":"/reference/cramer.cucumber.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"Cramer, C. S., T. C. Wehner, S. B. Donaghy. 1999.   PATHSAS: SAS computer program path coefficient analysis quantitative data.   J. Hered, 90, 260-262   https://doi.org/10.1093/jhered/90.1.260","code":""},{"path":"/reference/cramer.cucumber.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"","code":"if (FALSE) {    library(agridat)   data(cramer.cucumber)   dat <- cramer.cucumber    libs(lattice)   splom(dat[3:9], group=dat$cycle,         main=\"cramer.cucumber - traits by cycle\",         auto.key=list(columns=3))     # derived traits   dat <- transform(dat,                    marketable = totalfruit-culledfruit,                    branchesperplant = branches/plants,                    nodesperbranch = leaves/(branches+plants),                    femalenodes = flowers+totalfruit)   dat <- transform(dat,                    perfenod = (femalenodes/leaves),                    fruitset = totalfruit/flowers,                    fruitperplant = totalfruit / plants,                    marketableperplant = marketable/plants,                    earlyperplant=earlyfruit/plants)   # just use cycle 1   dat1 <- subset(dat, cycle==1)    # define independent and dependent variables   indep <- c(\"branchesperplant\", \"nodesperbranch\", \"perfenod\", \"fruitset\")   dep0 <- \"fruitperplant\"   dep <- c(\"marketable\",\"earlyperplant\")    # standardize trait data for cycle 1   sdat <- data.frame(scale(dat1[1:8, c(indep,dep0,dep)]))    # slopes for dep0 ~ indep   X <- as.matrix(sdat[,indep])   Y <- as.matrix(sdat[,c(dep0)])   # estdep <- solve(t(X)    estdep <- solve(crossprod(X), crossprod(X,Y))   estdep   ## branchesperplant 0.7160269   ## nodesperbranch   0.3415537   ## perfenod         0.2316693   ## fruitset         0.2985557    # slopes for dep ~ dep0   X <- as.matrix(sdat[,dep0])   Y <- as.matrix(sdat[,c(dep)])   # estind2 <- solve(t(X)    estind2 <- solve(crossprod(X), crossprod(X,Y))   estind2   ##  marketable earlyperplant   ##     0.97196     0.8828393    # correlation coefficients for indep variables   corrind=cor(sdat[,indep])   round(corrind,2)   ##                  branchesperplant nodesperbranch perfenod fruitset   ## branchesperplant             1.00           0.52    -0.24     0.09   ## nodesperbranch               0.52           1.00    -0.44     0.14   ## perfenod                    -0.24          -0.44     1.00     0.04   ## fruitset                     0.09           0.14     0.04     1.00    # Correlation coefficients for dependent variables   corrdep=cor(sdat[,c(dep0, dep)])   round(corrdep,2)   ##               fruitperplant marketable earlyperplant   ## fruitperplant          1.00       0.97          0.88   ## marketable             0.97       1.00          0.96   ## earlyperplant          0.88       0.96          1.00    result = corrind   result = result*matrix(estdep,ncol=4,nrow=4,byrow=TRUE)   round(result,2) # match SAS output columns 1-4   ##                  branchesperplant nodesperbranch perfenod fruitset   ## branchesperplant             0.72           0.18    -0.06     0.03   ## nodesperbranch               0.37           0.34    -0.10     0.04   ## perfenod                    -0.17          -0.15     0.23     0.01   ## fruitset                     0.07           0.05     0.01     0.30    resdep0 = rowSums(result)   resdep <- cbind(resdep0,resdep0)*matrix(estind2, nrow=4,ncol=2,byrow=TRUE)   colnames(resdep) <- dep   # slightly different from SAS output last 2 columns   round(cbind(fruitperplant=resdep0, round(resdep,2)),2)   ##                  fruitperplant marketable earlyperplant   ## branchesperplant          0.87       0.84          0.76   ## nodesperbranch            0.65       0.63          0.58   ## perfenod                 -0.08      -0.08         -0.07   ## fruitset                  0.42       0.41          0.37 }"},{"path":"/reference/crampton.pig.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight gain in pigs for different treatments — crampton.pig","title":"Weight gain in pigs for different treatments — crampton.pig","text":"Weight gain pigs different treatments, initial weight   feed eaten covariates.","code":""},{"path":"/reference/crampton.pig.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Weight gain in pigs for different treatments — crampton.pig","text":"","code":"data(\"crampton.pig\")"},{"path":"/reference/crampton.pig.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight gain in pigs for different treatments — crampton.pig","text":"data frame 50 observations following 5 variables. treatment feed treatment rep replicate weight1 initial weight feed feed eaten weight2 final weight","code":""},{"path":"/reference/crampton.pig.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Weight gain in pigs for different treatments — crampton.pig","text":"study effect initial weight feed eaten weight   gaining ability pigs different feed treatments. data extracted Ostle. clear 'replicate'   actually blocking replicate opposed repeated measurement.   original source document needs consulted.","code":""},{"path":"/reference/crampton.pig.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight gain in pigs for different treatments — crampton.pig","text":"Crampton, EW Hopkins, JW. (1934).   Use Method Partial Regression Analysis Comparative Feeding Trial Data, Part II.   Journal Nutrition, 8, 113-123.   https://doi.org/10.1093/jn/8.3.329","code":""},{"path":"/reference/crampton.pig.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight gain in pigs for different treatments — crampton.pig","text":"Bernard Ostle. Statistics Research, Page 458.   https://archive.org/details/secondeditionsta001000mbp Goulden (1939). Methods Statistical Analysis, 1st ed. Page 256-259.   https://archive.org/details/methodsofstatist031744mbp","code":""},{"path":"/reference/crampton.pig.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight gain in pigs for different treatments — crampton.pig","text":"","code":"if (FALSE) {      library(agridat)    data(crampton.pig)   dat <- crampton.pig    dat <- transform(dat, gain=weight2-weight1)   libs(lattice)   # Trt 4 looks best   xyplot(gain ~ feed, dat, group=treatment, type=c('p','r'),          auto.key=list(columns=5),          xlab=\"Feed eaten\", ylab=\"Weight gain\", main=\"crampton.pig\")      # Basic Anova without covariates   m1 <- lm(weight2 ~ treatment + rep, data=dat)   anova(m1)   # Add covariates   m2 <- lm(weight2 ~ treatment + rep + weight1 + feed, data=dat)   anova(m2)   # Remove treatment, test this nested model for significant treatments   m3 <- lm(weight2 ~ rep + weight1 + feed, data=dat)   anova(m2,m3) # p-value .07. F=2.34 matches Ostle }"},{"path":"/reference/crossa.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Wheat yields 18 genotypes 25 locations","code":""},{"path":"/reference/crossa.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"data frame 450 observations following 3 variables. loc location locgroup location group: Grp1-Grp2 gen genotype gengroup genotype group: W1, W2, W3 yield grain yield, tons/ha","code":""},{"path":"/reference/crossa.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Grain yield 8th Elite Selection Wheat Yield Trial evaluate   18 bread wheat genotypes 25 locations 15 countries. Cross et al. used data cluster loctions 2   mega-environments clustered genotypes 3 wheat clusters. Locations Used permission Jose' Crossa.","code":""},{"path":"/reference/crossa.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Crossa, J Fox, PN Pfeiffer, WH Rajaram, S Gauch Jr,   HG. (1991).   AMMI adjustment statistical analysis   international wheat yield trial.   Theoretical Applied Genetics, 81, 27--37.   https://doi.org/10.1007/BF00226108","code":""},{"path":"/reference/crossa.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Jean-Louis Laffont, Kevin Wright Mohamed Hanafi (2013).   Genotype + Genotype x Block Environments (GGB) Biplots.   Crop Science, 53, 2332-2341.   https://doi.org/10.2135/cropsci2013.03.0178","code":""},{"path":"/reference/crossa.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"","code":"if (FALSE) {    library(agridat)   data(crossa.wheat)   dat <- crossa.wheat      # AMMI biplot.  Fig 3 of Crossa et al.   libs(agricolae)   m1 <- with(dat, AMMI(E=loc, G=gen, R=1, Y=yield))   b1 <- m1$biplot[,1:4]   b1$PC1 <- -1 * b1$PC1 # Flip vertical   plot(b1$yield, b1$PC1, cex=0.0,        text(b1$yield, b1$PC1, cex=.5, labels=row.names(b1),col=\"brown\"),        main=\"crossa.wheat AMMI biplot\",        xlab=\"Average yield\", ylab=\"PC1\", frame=TRUE)   mn <- mean(b1$yield)   abline(h=0, v=mn, col='wheat')    g1 <- subset(b1,type==\"GEN\")   text(g1$yield, g1$PC1, rownames(g1), col=\"darkgreen\", cex=.5)      e1 <- subset(b1,type==\"ENV\")   arrows(mn, 0,          0.95*(e1$yield - mn) + mn, 0.95*e1$PC1,          col= \"brown\", lwd=1.8,length=0.1)      # GGB example   library(agridat)   data(crossa.wheat)   dat2 <- crossa.wheat   libs(gge)   # Specify env.group as column in data frame   m2 <- gge(dat2, yield~gen*loc,             env.group=locgroup, gen.group=gengroup,             scale=FALSE)   biplot(m2, main=\"crossa.wheat - GGB biplot\")    }"},{"path":"/reference/crowder.seeds.html","id":null,"dir":"Reference","previous_headings":"","what":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"Number Orobanche seeds tested/germinated two genotypes   two treatments.","code":""},{"path":"/reference/crowder.seeds.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"plate Factor replication gen Factor genotype levels O73, O75 extract Factor extract bean, cucumber germ Number seeds germinated n Total number seeds tested","code":""},{"path":"/reference/crowder.seeds.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"Egyptian broomrape, orobanche aegyptiaca parasitic plant   family.  plants chlorophyll grow roots   plants.  seeds remain dormant soil certain compounds   living plants stimulate germination. Two genotypes studied experiment, O. aegyptiaca 73   O. aegyptiaca 75.  seeds brushed one two   extracts prepared either bean plant cucmber plant. experimental design 2x2 factorial, 5 6 reps   plates.","code":""},{"path":"/reference/crowder.seeds.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"Crowder, M.J., 1978.   Beta-binomial anova proportions.   Appl. Statist., 27, 34-37.   https://doi.org/10.2307/2346223","code":""},{"path":"/reference/crowder.seeds.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"N. E. Breslow D. G. Clayton. 1993.   Approximate inference generalized linear mixed models.   Journal American Statistical Association, 88:9-25.   https://doi.org/10.2307/2290687 Y. Lee J. . Nelder. 1996.   Hierarchical generalized linear models discussion.   J. R. Statist. Soc. B, 58:619-678.","code":""},{"path":"/reference/crowder.seeds.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"","code":"if (FALSE) {    library(agridat)   data(crowder.seeds)   dat <- crowder.seeds   m1.glm <- m1.glmm <- m1.bb <- m1.hglm <- NA     # ----- Graphic   libs(lattice)   dotplot(germ/n~gen|extract, dat, main=\"crowder.seeds\")     # ----- brms   # Note, in Emacs brms ends the R process for some reason.   ## m1.brms <- brms::brm( germ|trials(n)~ gen*extract,   ##   data = dat,   ##   family = binomial,   ##   chains=3, iter=3000, warmup=1000)   ## summary(m1)       # ----- GLM.   # family=binomial() fixes dispersion at 1   # family=quasibinomial() estimates dispersion, had larger std errors   m1.glm <- glm(cbind(germ,n-germ) ~ gen*extract,                 data=dat,                 #family=\"binomial\",                 family=quasibinomial()                 )   summary(m1.glm)         # --- GLMM.  Assumes Gaussian random effects   libs(MASS)   m1.glmm <- glmmPQL(cbind(germ, n-germ) ~ gen*extract, random= ~1|plate,                      family=binomial(), data=dat)   summary(m1.glmm)      # ----- HGML package. Beta-binomial with beta-distributed random effects    libs(hglm)    m1.hglm <- hglm(fixed= germ/n ~ I(gen==\"O75\")*extract, weights=n, data=dat,                    random=~1|plate, family=binomial(), rand.family=Beta(),                    fix.disp=1)      # ----- INLA package. See: https://haakonbakka.bitbucket.io/btopic102.html     # libs(INLA)     # gen,extract are fixed. plate is a random effect     # Priors for hyper parameters. See: inla.doc(\"pc.prec\")     # hyper1 = list(theta = list(prior=\"pc.prec\", param=c(1,0.01)))     # m1.inla = inla(germ ~ gen*extract + f(plate, model=\"iid\", hyper=hyper1),     #                data=crowder.seeds,      #                family=\"binomial\", Ntrials=n,      #                control.family=list(control.link=list(model=\"logit\")))        # Compare coefficients       # round(  summary(m1.brms)$fixed[,1:4] , 2)   #                        Estimate Est.Error l-95   # Intercept                 -0.42      0.18    -0.77    -0.06   # genO75                    -0.14      0.22    -0.56     0.29   # extractcucumber            0.55      0.25     0.07     1.05   # genO75:extractcucumber     0.77      0.30     0.18     1.36      ## round(summary(m1.glm)$coef,2)   ##                        Estimate Std. Error t value Pr(>|t|)   ## (Intercept)               -0.41       0.25   -1.64     0.12   ## genO75                    -0.15       0.30   -0.48     0.64   ## extractcucumber            0.54       0.34    1.58     0.13   ## genO75:extractcucumber     0.78       0.42    1.86     0.08       ## round(summary(m1.glmm)$tTable,2)   ##                        Value Std.Error DF t-value p-value   ## (Intercept)            -0.44      0.25 17   -1.80    0.09   ## genO75                 -0.10      0.31 17   -0.34    0.74   ## extractcucumber         0.52      0.34 17    1.56    0.14   ## genO75:extractcucumber  0.80      0.42 17    1.88    0.08       ## round(summary(m1.bb)$BCoef,2)   ##                        Estimate Std. Error z value Pr(> |z|)   ## (Intercept)               -0.44       0.22   -2.04      0.04   ## genO75                    -0.10       0.27   -0.36      0.72   ## extractcucumber            0.52       0.30    1.76      0.08   ## genO75:extractcucumber     0.80       0.38    2.11      0.03       ## round(summary(m1.hglm)$FixCoefMat,2)   ##                                     Estimate Std. Error t-value Pr(>|t|)   ## (Intercept)                            -0.47       0.24   -1.92     0.08   ## I(gen == \"O75\")TRUE                    -0.08       0.31   -0.25     0.81   ## extractcucumber                         0.51       0.33    1.53     0.16   ## I(gen == \"O75\")TRUE:extractcucumber     0.83       0.43    1.92     0.08       ## round(m1.inla$summary.fixed,2)   ##                         mean   sd 0.025quant 0.5quant 0.975quant  mode kld   ## (Intercept)            -0.46 0.24      -0.94    -0.45      -0.01 -0.45   0   ## genO75                 -0.09 0.30      -0.67    -0.10       0.52 -0.11   0   ## extractcucumber         0.53 0.32      -0.12     0.53       1.17  0.53   0   ## genO75:extractcucumber  0.82 0.42       0.01     0.82       1.66  0.81   0           # ----- Stan using pre-built models from rstanarm   libs(tidyverse, rstan, rstanarm,bayesplot)   m1.stan <- stan_glm( cbind(germ,n-germ) ~ gen*extract,                       data=dat,                       family = binomial(link=\"logit\")  )   # summary(m1.stan)   round(posterior_interval(m1.stan, prob=.90),3)   #                            5   # (Intercept)            -0.715 -0.111   # genO75                 -0.512  0.228   # extractcucumber         0.123  0.977   # genO75:extractcucumber  0.248  1.284   libs(bayesplot)   mcmc_areas(m1.stan, prob = 0.9) +     ggtitle(\"Posterior distributions\",             \"with medians and 95 pct intervals\") if(0) {    # --- rjags version ---  # JAGS/BUGS.  See https://mathstat.helsinki.fi/openbugs/Examples/Seeds.html # Germination rate depends on p, which is a logit of a linear predictor # based on genotype and extract, plus random deviation to intercept  # To match the output on the BUGS web page, use: dat$gen==\"O73\". # We use dat$gen==\"O75\" to compare with the parameterization above. jdat =list(germ = dat$germ, n = dat$n,            root = as.numeric(dat$extract==\"cucumber\"),            gen = as.numeric(dat$gen==\"O75\"),            nobs = nrow(dat))  jinit = list(int = 0, genO75 = 0, extcuke = 0, g75ecuke = 0, tau = 10)  # Use logical names (unlike BUGS documentation) mod.bug = \"model {   for(i in 1:nobs) {     germ[i] ~ dbin(p[i], n[i])     b[i] ~ dnorm(0.0, tau)     logit(p[i]) <- int + genO75 * gen[i] + extcuke * root[i] +                    g75ecuke * gen[i] * root[i] + b[i]   }   int ~ dnorm(0.0, 1.0E-6)   genO75 ~ dnorm(0.0, 1.0E-6)   extcuke ~ dnorm(0.0, 1.0E-6)   g75ecuke ~ dnorm(0.0, 1.0E-6)   tau ~ dgamma(0.001, 0.001)   sigma <- 1 / sqrt(tau) }\"  libs(rjags) oo <- textConnection(mod.bug) j1 <- jags.model(oo, data=jdat, inits=jinit, n.chains=1) close(oo)  c1 <- coda.samples(j1, c(\"int\",\"genO75\",\"g75ecuke\",\"extcuke\",\"sigma\"),                    n.iter=20000) summary(c1) # Medians are very similar to estimates from hglm # libs(lucid) # print(vc(c1),3) ##             Mean    SD    2.5 ## extcuke   0.543  0.331 -0.118   0.542   1.2    ## g75ecuke  0.807  0.436 -0.0586  0.802   1.7    ## genO75   -0.0715 0.309 -0.665  -0.0806  0.581  ## int      -0.479  0.241 -0.984  -0.473  -0.0299 ## sigma     0.289  0.142  0.0505  0.279   0.596   # Plot observed data with HPD intervals for germination probability c2 <- coda.samples(j1, c(\"p\"), n.iter=20000) hpd <- HPDinterval(c2)[[1]] med <- summary(c2, quantiles=.5)$quantiles fit <- data.frame(med, hpd)  libs(latticeExtra) obs <- dotplot(1:21 ~ germ/n, dat,                main=\"crowder.seeds\", ylab=\"plate\",                col=as.numeric(dat$gen), pch=substring(dat$extract,1)) obs + segplot(1:21 ~ lower + upper, data=fit, centers=med)   ## --- R2jags version ---  libs(\"agridat\") libs(\"R2jags\") dat <- crowder.seeds  # To match the output on the BUGS web page, use: dat$gen==\"O73\". # We use dat$gen==\"O75\" to compare with the parameterization above. jdat =list(germ = dat$germ, n = dat$n,            root = as.numeric(dat$extract==\"cucumber\"),            gen = as.numeric(dat$gen==\"O75\"),            nobs = nrow(dat))  jinit = list(list(int = 0, genO75 = 0, extcuke = 0, g75ecuke = 0, tau = 10))  mod.bug = function() {   for(i in 1:nobs) {     germ[i] ~ dbin(p[i], n[i])     b[i] ~ dnorm(0.0, tau)     logit(p[i]) <- int + genO75 * gen[i] + extcuke * root[i] +       g75ecuke * gen[i] * root[i] + b[i]   }   int ~ dnorm(0.0, 1.0E-6)   genO75 ~ dnorm(0.0, 1.0E-6)   extcuke ~ dnorm(0.0, 1.0E-6)   g75ecuke ~ dnorm(0.0, 1.0E-6)   tau ~ dgamma(0.001, 0.001)   sigma <- 1 / sqrt(tau) }  parms <- c(\"int\",\"genO75\",\"g75ecuke\",\"extcuke\",\"sigma\")  j1 <- jags(data=jdat, inits=jinit, parms, model.file=mod.bug,            n.iter=20000, n.chains=1) print(j1) ##          mu.vect sd.vect   2.5 ## extcuke    0.519   0.325 -0.140  0.325   0.531   0.728   1.158 ## g75ecuke   0.834   0.429 -0.019  0.552   0.821   1.101   1.710 ## genO75    -0.096   0.305 -0.670 -0.295  -0.115   0.089   0.552 ## int       -0.461   0.236 -0.965 -0.603  -0.455  -0.312   0.016 ## sigma      0.255   0.148  0.033  0.140   0.240   0.352   0.572 ## deviance 103.319   7.489 90.019 98.010 102.770 108.689 117.288  traceplot(as.mcmc(j1)) densityplot(as.mcmc(j1)) HPDinterval(as.mcmc(j1))  }  }"},{"path":"/reference/cullis.earlygen.html","id":null,"dir":"Reference","previous_headings":"","what":"Early generation variety trial in wheat — cullis.earlygen","title":"Early generation variety trial in wheat — cullis.earlygen","text":"Early generation variety trial wheat","code":""},{"path":"/reference/cullis.earlygen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Early generation variety trial in wheat — cullis.earlygen","text":"data frame 670 observations following 5 variables. gen genotype factor row row col column entry entry (genotype) number yield yield plot, kg/ha weed weed score","code":""},{"path":"/reference/cullis.earlygen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Early generation variety trial in wheat — cullis.earlygen","text":"data field experiment conducted Tullibigeal, New   South Wales, Australia 1987-88. aim trials   identify retain top (10-20 percent) lines   testing. genotypes unreplicated, augmented genotypes.   row, every 6th plot variety 526 = 'Kite'.   Six varieties 527-532 randomly placed trial, 3   5 plots .   plot 15m x 1.8m, \"oriented longest side rows\". 'weed' variable visual score 0 10 scale, 0 =   weeds, 10 = 100 percent weeds. Cullis et al. (1989) presented analysis early generation variety   trials included one-dimensional spatial analysis.  ,   two-dimensional spatial analysis presented. Note: 'row' 'col' variables VSN link (switched   compared paper Cullis et al.) Field width: 10 rows * 15 m = 150 m Field length: 67 plots * 1.8 m  = 121 m orientation certain, alternative orientation   field roughly 20m x 1000m, seems unlikely.","code":""},{"path":"/reference/cullis.earlygen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Early generation variety trial in wheat — cullis.earlygen","text":"Brian R. Cullis, Warwick J. Lill, John . Fisher, Barbara J. Read   Alan C. Gleeson (1989).   New Procedure Analysis Early Generation Variety Trials.   Journal Royal Statistical Society. Series C (Applied     Statistics), 38, 361-375.   https://doi.org/10.2307/2348066","code":""},{"path":"/reference/cullis.earlygen.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Early generation variety trial in wheat — cullis.earlygen","text":"Unreplicated early generation variety trial Wheat.   https://www.vsni.co.uk/software/asreml/htmlhelp/asreml/xwheat.htm","code":""},{"path":"/reference/cullis.earlygen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Early generation variety trial in wheat — cullis.earlygen","text":"","code":"if (FALSE) {    library(agridat)   data(cullis.earlygen)   dat <- cullis.earlygen    # Show field layout of checks.  Cullis Table 1.   dat$check <- ifelse(dat$entry < 8, dat$entry, NA)   libs(desplot)   desplot(dat, check ~ col*row,           num=entry, cex=0.5, flip=TRUE, aspect=121/150, # true aspect           main=\"cullis.earlygen (yield)\")    desplot(dat, yield ~ col*row,           num=\"check\", cex=0.5, flip=TRUE, aspect=121/150, # true aspect           main=\"cullis.earlygen (yield)\")    grays <- colorRampPalette(c(\"white\",\"#252525\"))   desplot(dat, weed ~ col*row,           at=0:6-0.5, col.regions=grays(7)[-1],           flip=TRUE, aspect=121/150, # true aspect           main=\"cullis.earlygen (weed)\")    libs(lattice)   bwplot(yield ~ as.character(weed), dat,          horizontal=FALSE,          xlab=\"Weed score\", main=\"cullis.earlygen\")    # Moving Grid   libs(mvngGrAd)   shape <- list(c(1),                 c(1),                 c(1:4),                 c(1:4))   # sketchGrid(10,10,20,20,shapeCross=shape, layers=1, excludeCenter=TRUE)   m0 <- movingGrid(rows=dat$row, columns=dat$col, obs=dat$yield,                    shapeCross=shape, layers=NULL)   dat$mov.avg <- fitted(m0)    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)      # Start with the standard AR1xAR1 analysis     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf),]     m2 <- asreml(yield ~ weed, data=dat, random= ~gen,                  resid = ~ ar1(xf):ar1(yf))          # Variogram suggests a polynomial trend     m3 <- update(m2, fixed= yield~weed+pol(col,-1))          # Now add a nugget variance     m4 <- update(m3, random= ~ gen + units)          lucid::vc(m4)     ##       effect component std.error z.ratio bound      ##          gen  73780    10420         7.1     P 0       ##        units  30440     8073         3.8     P 0.1     ##     xf:yf(R)  54730    10630         5.1     P 0       ## xf:yf!xf!cor      0.38     0.115     3.3     U 0       ## xf:yf!yf!cor      0.84     0.045    19       U 0            ## # Predictions from models m3 and m4 are non-estimable.  Why?     ## # Use model m2 for predictions     ## predict(m2, classify=\"gen\")$pvals     ## ##         gen predicted.value std.error    status     ## ## 1     Banks        2723.534  93.14719 Estimable     ## ## 2    Eno008        2981.056 162.85241 Estimable     ## ## 3    Eno009        2978.008 161.57129 Estimable     ## ## 4    Eno010        2821.399 153.96943 Estimable     ## ## 5    Eno011        2991.612 161.53507 Estimable               ## # Compare AR1 with Moving Grid     ## dat$ar1 <- fitted(m2)     ## head(dat[ , c('yield','ar1','mov.avg')])     ## ##    yield      ar1       mg     ## ## 1   2652 2467.980 2531.998     ## ## 11  3394 3071.681 3052.160     ## ## 21  3148 2826.188 2807.031     ## ## 31  3426 3026.985 3183.649     ## ## 41  3555 3070.102 3195.910     ## ## 51  3453 3006.352 3510.511     ## pairs(dat[ , c('yield','ar1','mg')])   }    }"},{"path":"/reference/damesa.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"Incomplete-block experiment maize Ethiopia.","code":""},{"path":"/reference/damesa.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"","code":"data(\"damesa.maize\")"},{"path":"/reference/damesa.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"data frame 264 observations following 8 variables. site site, 4 levels rep replicate, 3 levels block incomplete block plot plot number gen genotype, 22 levels row row ordinate col column ordinate yield yield, t/ha","code":""},{"path":"/reference/damesa.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"experiment harvested 2012, evaluating drought-tolerant maize   hybrids 4 sites Ethiopia.   site, incomplete-block design used. Damesa et al use data compare single-stage two-stage   analyses.","code":""},{"path":"/reference/damesa.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"Tigist Mideksa Damesa, Jens Möhring, Mosisa Worku, Hans-Peter Piepho (2017).   One Step Time: Stage-Wise Analysis Series Experiments.   Agronomy J, 109, 845-857.   https://doi.org/10.2134/agronj2016.07.0395","code":""},{"path":"/reference/damesa.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"None","code":""},{"path":"/reference/damesa.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"","code":"if (FALSE) {   library(agridat)   data(damesa.maize)   libs(desplot)   desplot(damesa.maize,           yield ~ col*row|site,           main=\"damesa.maize\",           out1=rep, out2=block, num=gen, cex=1)    if(require(\"asreml\", quietly=TRUE)) {     # Fit the single-stage model in Damesa     libs(asreml,lucid)     m0 <- asreml(data=damesa.maize,                  fixed = yield ~ gen,                  random = ~ site + gen:site + at(site):rep/block,                  residual = ~ dsum( ~ units|site) )     lucid::vc(m0) # match Damesa table 1 column 3     ##                 effect component std.error z.ratio bound      ##       at(site, S1):rep   0.08819   0.1814     0.49     P 0       ##       at(site, S2):rep   1.383     1.426      0.97     P 0       ##       at(site, S3):rep   0              NA      NA     B 0       ##       at(site, S4):rep   0.01442   0.02602    0.55     P 0       ##                   site  10.45      8.604      1.2      P 0.1     ##               gen:site   0.1054    0.05905    1.8      P 0.1     ## at(site, S1):rep:block   0.3312    0.3341     0.99     P 0       ## at(site, S2):rep:block   0.4747    0.1633     2.9      P 0       ## at(site, S3):rep:block   0              NA      NA     B 0       ## at(site, S4):rep:block   0.06954   0.04264    1.6      P 0       ##              site_S1!R   1.346     0.3768     3.6      P 0       ##              site_S2!R   0.1936    0.06628    2.9      P 0       ##              site_S3!R   1.153     0.2349     4.9      P 0       ##              site_S4!R   0.1112    0.03665    3        P 0     }    }"},{"path":"/reference/darwin.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"Darwin's maize data crossed/inbred plant heights.","code":""},{"path":"/reference/darwin.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"data frame 30 observations following 4 variables. pot Pot factor, 4 levels pair Pair factor, 12 levels type Type factor, self-pollinated, cross-pollinated height Height, inches (measured 1/8 inch)","code":""},{"path":"/reference/darwin.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"Charles Darwin, 1876, reported data experiment   conducted heights corn plants.    seeds came parents, seeds produced   self-fertilized parents seeds produced   cross-fertilized parents.  Pairs seeds planted pots.   Darwin hypothesized cross-fertilization produced produced   robust vigorous offspring. Darwin wrote, \"long doubted whether worth give  measurements separate plant, decided ,  order may seen superiority crossed plants  self-fertilised, commonly depend presence  two three extra fine plants one side, poor  plants side. Although several observers insisted  general terms offspring intercrossed varieties  superior either parent-form, precise measurements  given;* met observations effects crossing  self-fertilising individuals variety. Moreover,  experiments kind require much time--mine  continued eleven years--likely soon  repeated.\" Darwin asked cousin Francis Galton help understanding   data.  Galton modern statistical methods approach   problem said, \"doubt, making many tests, whether   possible derive useful conclusions observations.    least 50 plants case, order   position deduce fair results\". Later, R. . Fisher used Darwin's data book design   experiments showed t-test exhibits significant difference   two groups.","code":""},{"path":"/reference/darwin.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"Darwin, C. R. 1876. effects cross self fertilisation   vegetable kingdom. London: John Murray. Page 16.   https://darwin-online.org.uk/converted/published/1881_Worms_F1357/1876_CrossandSelfFertilisation_F1249/1876_CrossandSelfFertilisation_F1249.html","code":""},{"path":"/reference/darwin.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"R. . Fisher, (1935) Design Experiments,  Oliver Boyd. Page 30.","code":""},{"path":"/reference/darwin.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"","code":"if (FALSE) {  library(agridat)  data(darwin.maize) dat <- darwin.maize  # Compare self-pollination with cross-pollination libs(lattice) bwplot(height~type, dat, main=\"darwin.maize\")    libs(reshape2)   dm <- melt(dat)   d2 <- dcast(dm, pot+pair~type)   d2$diff <- d2$cross-d2$self   t.test(d2$diff)   ##   One Sample t-test   ## t = 2.148, df = 14, p-value = 0.0497   ## alternative hypothesis: true mean is not equal to 0   ## 95 percent confidence interval:   ##  0.003899165 5.229434169  }"},{"path":"/reference/dasilva.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize — dasilva.maize","title":"Multi-environment trial of maize — dasilva.maize","text":"Multi-environment trial maize 3 reps.","code":""},{"path":"/reference/dasilva.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize — dasilva.maize","text":"","code":"data(\"dasilva.maize\")"},{"path":"/reference/dasilva.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize — dasilva.maize","text":"data frame 1485 observations following 4 variables. env environment rep replicate block, 3 per env gen genotype yield yield (tons/hectare)","code":""},{"path":"/reference/dasilva.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize — dasilva.maize","text":"location 3 blocks. Block numbers unique across   environments. NOTE! environment codes supplemental data file da Silva   2015 quite match environment codes paper,   mostly 1. DaSilva Table 1 footnote \"Machado et al 2007\". reference   appears : Machado et al.   Estabilidade de producao de hibridos simples e duplos de milhooriundos   de um mesmo conjunto genico.   Bragantia, 67, 3. www.scielo.br/pdf/brag/v67n3/a10v67n3.pdf DaSilva Table 1, mean E1 10.803.  appears   copy mean row 1 Table 1 Machado. Using   supplemental data paper, correct mean 8.685448.","code":""},{"path":"/reference/dasilva.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize — dasilva.maize","text":"Bayesian Shrinkage Approach AMMI Models.   Carlos Pereira da Silva, Luciano Antonio de Oliveira, Joel Jorge   Nuvunga, Andrezza Kellen Alves Pamplona, Marcio Balestre.   Plos One. Supplemental material.   https://doi.org/10.1371/journal.pone.0131414 Used via license: Creative Commons -SA.","code":""},{"path":"/reference/dasilva.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize — dasilva.maize","text":"J.J. Nuvunga, L.. Oliveira, .K.. Pamplona, C.P. Silva, R.R. Lima   M. Balestre.    Factor analysis using mixed models multi-environment trials   different levels unbalancing.   Genet. Mol. Res. 14.","code":""},{"path":"/reference/dasilva.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize — dasilva.maize","text":"","code":"library(agridat) data(dasilva.maize) dat <- dasilva.maize  # Try to match Table 1 of da Silva 2015. # aggregate(yield ~ env, data=dat, FUN=mean) ##   env     yield ## 1  E1  6.211817  # match E2 in Table 1 ## 2  E2  4.549104  # E3 ## 3  E3  5.152254  # E4 ## 4  E4  6.245904  # E5 ## 5  E5  8.084609  # E6 ## 6  E6 13.191890  # E7 ## 7  E7  8.895721  # E8 ## 8  E8  8.685448   ## 9  E9  8.737089  # E9  # Unable to match CVs in Table 2, but who knows what they used # for residual variance. # aggregate(yield ~ env, data=dat, FUN=function(x) 100*sd(x)/mean(x))  # Match DaSilva supplement 2, ANOVA # m1 <- aov(yield ~ env + gen + rep:env + gen:env, dat) # anova(m1) ## Response: yield ##            Df Sum Sq Mean Sq  F value    Pr(>F)     ## env         8 8994.2 1124.28 964.1083 < 2.2e-16 *** ## gen        54  593.5   10.99   9.4247 < 2.2e-16 *** ## env:rep    18   57.5    3.19   2.7390 0.0001274 *** ## env:gen   432  938.1    2.17   1.8622 1.825e-15 *** ## Residuals 972 1133.5    1.17"},{"path":"/reference/dasilva.soybean.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of soybean — dasilva.soybean.uniformity","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Uniformity trial soybean Brazil, 1970.","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"","code":"data(\"dasilva.soybean.uniformity\")"},{"path":"/reference/dasilva.soybean.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"data frame 1152 observations following 3 variables. row row col column yield yield, grams/plot","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Field length: 48 rows * .6 m = 28.8 m Field width: 24 columns * .6 m = 14.4 m","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Enedino Correa da Silva. (1974).   Estudo tamanho e forma de parcelas para experimentos de soja (Plot size shape soybean yield trials).   Pesquisa Agropecuaria Brasileira, Serie Agronomia, 9,  49-59. Table 3,   page 52-53.   https://seer.sct.embrapa.br/index.php/pab/article/view/17250","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Humada-Gonzalez, G.G. (2013).   Estimação tamanho otimo de parcela experimental em experimento com soja.   Dissertation, Universidade Federal de Lavras.   http://repositorio.ufla.br/jspui/handle/1/744","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(dasilva.soybean.uniformity) dat <- dasilva.soybean.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=28.8/14.4,          main=\"dasilva.soybean.uniformity\")    }"},{"path":"/reference/davidian.soybean.html","id":null,"dir":"Reference","previous_headings":"","what":"Growth of soybean varieties in 3 years — davidian.soybean","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"Growth soybean varieties 3 years","code":""},{"path":"/reference/davidian.soybean.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"","code":"data(\"davidian.soybean\")"},{"path":"/reference/davidian.soybean.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"data frame 412 observations following 5 variables. plot plot code variety variety, F P year 1988-1990 day days planting weight weight soybean leaves","code":""},{"path":"/reference/davidian.soybean.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"experiment compared growth patterns two genotypes soybean   varieties: F=Forrest (commercial variety) P=Plant Introduction   number 416937 (experimental variety). Data collected 3 consecutive years. start growing season, 16 plots seeded (8   variety). Data collected approximately weekly. timepoint,   six plants randomly selected plot. leaves   6 plants weighed, average leaf weight per plant   reported. (assume data collection destructive   different plants sampled date). Note: data \"nlme::Soybean\" data.","code":""},{"path":"/reference/davidian.soybean.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"Marie Davidian D. M. Giltinan, (1995).   Nonlinear Models Repeated Measurement Data.   Chapman Hall, London. Electronic version retrieved   https://www4.stat.ncsu.edu/~davidian/data/soybean.dat","code":""},{"path":"/reference/davidian.soybean.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"Pinheiro, J. C. Bates, D. M. (2000).   Mixed-Effects Models S S-PLUS.   Springer, New York.","code":""},{"path":"/reference/davidian.soybean.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"","code":"if (FALSE) {    library(agridat)   data(davidian.soybean)   dat <- davidian.soybean   dat$year <- factor(dat$year)    libs(lattice)   xyplot(weight ~ day|variety*year, dat,          group=plot, type='l',          main=\"davidian.soybean\")     # The only way to keep your sanity with nlme is to use groupedData objects   # Well, maybe not.  When I use \"devtools::run_examples\",   # the \"groupedData\" function creates a dataframe with/within(?) an   # environment, and then \"nlsList\" cannot find datg, even though   # ls() shows datg is visible and head(datg) is fine.   # Also works fine in interactive mode. It is driving me insane.   # reid.grasses has the same problem   # Use if(0){} to block this code from running.   if(0){     libs(nlme)     datg <- groupedData(weight ~ day|plot, dat)     # separate fixed-effect model for each plot     # 1988P6 gives unusual estimates     m1 <- nlsList(SSlogis, data=datg,                   subset = plot != \"1988P6\")     # plot(m1) # seems heterogeneous     plot(intervals(m1), layout=c(3,1)) # clear year,variety effects in Asym      # A = maximum, B = time of half A = steepness of curve     # C = sharpness of curve (smaller = sharper curve)      # switch to mixed effects     m2 <- nlme(weight ~ A / (1+exp(-(day-B)/C)),                data=datg,                fixed=list(A ~ 1, B ~ 1, C ~ 1),                random = A +B +C ~ 1,                start=list(fixed = c(17,52,7.5))) # no list!      # add covariates for A,B,C effects, correlation, weights     # not necessarily best model, but it shows the syntax     m3 <- nlme(weight ~ A / (1+exp(-(day-B)/C)),                data=datg,                fixed=list(A ~ variety + year,                           B ~ year,                         C ~ year),                random = A +B +C ~ 1,                start=list(fixed= c(19,0,0,0,                                    55,0,0,                                    8,0,0)),                correlation = corAR1(form = ~ 1|plot),                weights=varPower(), # really helps                control=list(mxMaxIter=200))      plot(augPred(m3), layout=c(8,6),       main=\"davidian.soybean - model 3\")   } # end if(0) }"},{"path":"/reference/davies.pasture.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of pasture. — davies.pasture.uniformity","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"Uniformity trial pasture Australia.","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"","code":"data(\"davies.pasture.uniformity\")"},{"path":"/reference/davies.pasture.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"data frame 760 observations following 3 variables. row row col column yield yield per plot, grams","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"Conducted Waite Agricultural Research Institute 1928.   rectangle 250 x 200 links selected, divided 1000 plots   measuring 10 x 5 links, 1/2000th acre.    Plots hand harvested herbage air-dried. Cutting began   Tue, 25 Sep ended Sat, 29 Sep, time 760 plots   harvested. Rain fell, harvesting ceased. minimum recommended plot size 150 square links. optimum   recommended plot size 450 square links, 5 x 90 links size. Note, 4 digits hard read original   document. Best estimates digits used yields   affects plots.  yields digitally watermarked   extra .01 added yield value. botanical composition species clearly influenced total herbage. Field length: 40 plots * 5 links = 200 links Field width: 19 plots * 10 links = 190 links","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"J. Griffiths Davies (1931).   Experimental Error Yield Small Plots Natural Pasture.   Council Scientific Industrial Research (Aust.) Bulletin 48.   Table 1.","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"None","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(davies.pasture.uniformity)   dat <- davies.pasture.uniformity      # range(dat$yield) # match Davies   # mean(dat$yield) # 227.77, Davies has 221.7   # sd(dat$yield)/mean(dat$yield) # 33.9, Davies has 32.5    # libs(lattice)   # qqmath( ~ yield, dat) # clearly non-normal, skewed right    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(40*5)/(19*10), # true aspect           main=\"davies.pasture.uniformity\")   }"},{"path":"/reference/day.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — day.wheat.uniformity","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"Uniformity trial wheat 1903 Missouri.","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"","code":"data(\"day.wheat.uniformity\")"},{"path":"/reference/day.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"data frame 3090 observations following 4 variables. row row col col grain grain weight, grams per plot straw straw weight, grams per plot","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"data Shelbina field Missouri Agricultural   Experiment Station. field (plat) 1/4 acre area   apparently uniform throughout. fall 1912, wheat drilled   rows 8 inches apart, row 155 feet long. wheat   harvested June, 5-foot segments. gross weight grain   weight measured, straw weight calculated subtraction. Field width: 31 series * 5 feet = 155 feet Field length: 100 rows, 8 inches apart = 66.66 feet","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"James Westbay Day (1916).   relation size, shape, number replications plats   probable error field experimentation.   Dissertation, University Missouri. Table 1, page 22.   https://hdl.handle.net/10355/56391","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"James W. Day (1920).   relation size, shape, number replications plats   probable error field experimentation.   Agronomy Journal, 12, 100-105.   https://doi.org/10.2134/agronj1920.00021962001200030002x","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(day.wheat.uniformity) dat <- day.wheat.uniformity  libs(desplot) desplot(dat, grain~col*row,         flip=TRUE, aspect=(100*8)/(155*12), # true aspect         main=\"day.wheat.uniformity - grain yield\")    # similar to Day table IV libs(lattice) xyplot(grain~straw, data=dat, main=\"day.wheat.uniformity\", type=c('p','r')) # cor(dat$grain, dat$straw) # .9498 # Day calculated 0.9416    libs(desplot) desplot(dat, straw~col*row,         flip=TRUE, aspect=(100*8)/(155*12), # true aspect         main=\"day.wheat.uniformity - straw yield\")    # Day fig 2 coldat <- aggregate(grain~col, dat, sum)  xyplot(grain ~ col, coldat, type='l', ylim=c(2500,6500)) dat$rowgroup <- round((dat$row +1)/3,0) rowdat <- aggregate(grain~rowgroup, dat, sum)  xyplot(grain ~ rowgroup, rowdat, type='l', ylim=c(2500,6500))  }"},{"path":"/reference/denis.missing.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial with structured missing values — denis.missing","title":"Multi-environment trial with structured missing values — denis.missing","text":"Grain yield measured 5 genotypes 26 environments.  Missing   values non-random, structured.","code":""},{"path":"/reference/denis.missing.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial with structured missing values — denis.missing","text":"env environment, 26 levels gen genotype factor, 5 levels yield yield Used permission Jean-Baptists Denis.","code":""},{"path":"/reference/denis.missing.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial with structured missing values — denis.missing","text":"Denis, J. B. C P Baril, 1992, Sophisticated models numerous missing   values: multiplicative interaction model example.   Biul. Oceny Odmian, 24--25, 7--31.","code":""},{"path":"/reference/denis.missing.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial with structured missing values — denis.missing","text":"H P Piepho, (1999) Stability analysis using SAS system,   Agron Journal, 91, 154--160.   https://doi.og/10.2134/agronj1999.00021962009100010024x","code":""},{"path":"/reference/denis.missing.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial with structured missing values — denis.missing","text":"","code":"if (FALSE) {  library(agridat) data(denis.missing) dat <- denis.missing  # view missingness structure libs(reshape2) acast(dat, env~gen, value.var='yield')   libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield ~ gen*env, data=dat,           col.regions=redblue,           main=\"denis.missing - incidence heatmap\")  # stability variance (Table 3 in Piepho) libs(nlme) m1 <- lme(yield ~ -1 + gen, data=dat, random= ~ 1|env,           weights = varIdent(form= ~ 1|gen),           na.action=na.omit) svar <- m1$sigma^2 * c(1, coef(m1$modelStruct$varStruct, unc = FALSE))^2 round(svar, 2) ##          G5    G3    G1    G2 ## 39.25 22.95 54.36 12.17 23.77  }"},{"path":"/reference/denis.ryegrass.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"Plant strength perennial ryegrass France 21 genotypes 7   locations.","code":""},{"path":"/reference/denis.ryegrass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"data frame 147 observations following 3 variables. gen genotype, 21 levels loc location, 7 levels strength average plant strength * 100","code":""},{"path":"/reference/denis.ryegrass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"INRA conducted breeding trial western France 21 genotypes   7 locations.  observed data 'strength' averaged 7-10   plants per plot three plots per location (adjusting   blocking effects).  plant scored scale 0-9. original data value 86.0 genotype G1 location   L4--replaced additive estimated value 361.2   Gower Hand (1996).","code":""},{"path":"/reference/denis.ryegrass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"Jean-Baptiste Denis John C. Gower, 1996.   Asymptotic confidence regions biadditive models:   interpreting genotype-environment interaction,   Applied Statistics, 45, 479-493.   https://doi.org/10.2307/2986069","code":""},{"path":"/reference/denis.ryegrass.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"Gower, J.C. Hand, D.J., 1996.  Biplots.   Chapman Hall.","code":""},{"path":"/reference/denis.ryegrass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"","code":"library(agridat) data(denis.ryegrass) dat <- denis.ryegrass  # biplots (without ellipses) similar to Denis figure 1 libs(gge) #>  #> Attaching package: ‘gge’ #> The following object is masked from ‘package:desplot’: #>  #>     RedGrayBlue m1 <- gge(dat, strength ~ gen*loc, scale=FALSE) biplot(m1, main=\"denis.ryegrass biplot\")"},{"path":"/reference/depalluel.sheep.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square of four breeds of sheep with four diets — depalluel.sheep","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"Latin square four breeds sheep four diets","code":""},{"path":"/reference/depalluel.sheep.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"","code":"data(\"depalluel.sheep\")"},{"path":"/reference/depalluel.sheep.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"data frame 32 observations following 5 variables. food diet animal animal number breed sheep breed weight weight, pounds date months start","code":""},{"path":"/reference/depalluel.sheep.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"may earliest known Latin Square experiment. Four sheep four breeds randomized four feeds   four slaughter dates. Sheep eat roots eat sheep eating corn,   acre land produces roots corn. de Palleuel said: short, adopting use roots, instead   corn, fattening sorts cattle, farmers   neighborhood capital gain great profit   , also much benefit public supplying   great city resources, preventing sudden rise meat   markets, often considerable.","code":""},{"path":"/reference/depalluel.sheep.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"M. Crette de Palluel (1788).   advantage economy feeding sheep house roots.   Annals Agriculture, 14, 133-139.   https://books.google.com/books?id=LXIqAAAAYAAJ&pg=PA133","code":""},{"path":"/reference/depalluel.sheep.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"None","code":""},{"path":"/reference/depalluel.sheep.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"","code":"if (FALSE) {  library(agridat)  data(depalluel.sheep) dat <- depalluel.sheep  # Not the best view...weight gain is large in the first month, then slows down # and the linear line hides this fact libs(lattice) xyplot(weight ~ date|food, dat, group=animal, type='l', auto.key=list(columns=4),        xlab=\"Months since start\",        main=\"depalluel.sheep\") }"},{"path":"/reference/devries.pine.html","id":null,"dir":"Reference","previous_headings":"","what":"Graeco-Latin Square experiment in pine — devries.pine","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"Graeco-Latin Square experiment pine","code":""},{"path":"/reference/devries.pine.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"","code":"data(\"devries.pine\")"},{"path":"/reference/devries.pine.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"data frame 36 observations following 6 variables. block block row row col column spacing spacing treatment thinning thinning treatment volume stem volume m^3/ha growth annual stem volume increment m^3/ha age 11","code":""},{"path":"/reference/devries.pine.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"Experiment conducted Caribbean Pine Coebiti Surinam (Long 55   28 30 W, Lat 5 18 5 N). Land cleared Jan 1965 planted May   1965. experimental plot 60m x 60m. Roads 10 m wide run   rows. block thus 180m wide 200m deep. Data   collected 40m x 40m plots center   experimental unit. Plots thinned 1972 1975.     two treatment factors (spacing, thinning) assigned   Graeco-Latin Square design. Spacing: =2.5, B=3, C=3.5. Thinning: Z=low, M=medium, S=heavy. Field width: 4 blocks x 180 m = 720 m Field length: 1 block x 200 m = 200 m.","code":""},{"path":"/reference/devries.pine.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"P.G. De Vries, J.W. Hildebrand, N.R. De Graaf. (1978).   Analysis 11 years growth carribbean pine replicated   Graeco-Latin square spacing-thinning experiment Surinam. Page 46, 51.   https://edepot.wur.nl/287590","code":""},{"path":"/reference/devries.pine.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"None","code":""},{"path":"/reference/devries.pine.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"","code":"if (FALSE) {    library(agridat)   data(devries.pine)   dat <- devries.pine    libs(desplot)   desplot(dat, volume ~ col*row,           main=\"devries.pine - expt design and tree volume\",           col=spacing, num=thinning, cex=1, out1=block, aspect=200/720)      libs(HH)   HH::interaction2wt(volume ~ spacing+thinning, dat,                      main=\"devries.pine\")    # ANOVA matches appendix 5 of DeVries   m1 <- aov(volume ~ block + spacing + thinning + block:factor(row) +               block:factor(col), data=dat)   anova(m1)  }"},{"path":"/reference/digby.jointregression.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat — digby.jointregression","title":"Multi-environment trial of wheat — digby.jointregression","text":"Yield 10 spring wheat varieties 17 locations 1976.","code":""},{"path":"/reference/digby.jointregression.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat — digby.jointregression","text":"data frame 134 observations following 3 variables. gen genotype, 10 levels env environment, 17 levels yield yield (t/ha)","code":""},{"path":"/reference/digby.jointregression.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat — digby.jointregression","text":"Yield 10 spring wheat varieties 17 locations 1976. Used illustrate modified joint regression.","code":""},{"path":"/reference/digby.jointregression.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat — digby.jointregression","text":"Digby, P.G.N. (1979). Modified joint regression analysis   incomplete variety x environment data.   Journal Agricultural Science, 93, 81-86.   https://doi.org/10.1017/S0021859600086159","code":""},{"path":"/reference/digby.jointregression.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat — digby.jointregression","text":"Hans-Pieter Piepho, 1997.   Analyzing Genotype-Environment Data Mixed-Models   Multiplicative Terms. Biometrics, 53, 761-766.   https://doi.org/10.2307/2533976 RJOINT procedure GenStat.   https://www.vsni.co.uk/software/genstat/htmlhelp/server/RJOINT.htm","code":""},{"path":"/reference/digby.jointregression.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat — digby.jointregression","text":"","code":"if (FALSE) {      library(agridat)   data(digby.jointregression)   dat <- digby.jointregression      # Simple gen means, ignoring unbalanced data.   # Matches Digby table 2, Unadjusted Mean   round(tapply(dat$yield, dat$gen, mean),3)      # Two-way model. Matches Digby table 2, Fitting Constants   m00 <- lm(yield ~ 0 + gen + env, dat)   round(coef(m00)[1:10]-2.756078+3.272,3) # Adjust intercept   # genG01 genG02 genG03 genG04 genG05 genG06 genG07 genG08 genG09 genG10    #  3.272  3.268  4.051  3.724  3.641  3.195  3.232  3.268  3.749  3.179       n.gen <- nlevels(dat$gen)   n.env <- nlevels(dat$env)      # Estimate theta (env eff)   m0 <- lm(yield ~ -1 + env + gen, dat)   thetas <- coef(m0)[1:n.env]   thetas <- thetas-mean(thetas) # center env effects   # Add env effects to the data   dat$theta <- thetas[match(paste(\"env\",dat$env,sep=\"\"), names(thetas))]      # Initialize beta (gen slopes) at 1   betas <- rep(1, n.gen)      done <- FALSE   while(!done){          betas0 <- betas          # M1: Fix thetas (env effects), estimate beta (gen slope)     m1 <- lm(yield ~ -1 + gen + gen:theta, data=dat)     betas <- coef(m1)[-c(1:n.gen)]     dat$beta <- betas[match(paste(\"gen\",dat$gen,\":theta\",sep=\"\"), names(betas))]     # print(betas)      # M2: Fix betas (gen slopes), estimate theta (env slope)     m2 <- lm(yield ~ env:beta + gen -1, data=dat)     thetas <- coef(m2)[-c(1:n.gen)]     thetas[is.na(thetas)] <- 0  # Change last coefficient from NA to 0     dat$theta <- thetas[match(paste(\"env\",dat$env,\":beta\",sep=\"\"), names(thetas))]     # print(thetas)      # Check convergence     chg <- sum(((betas-betas0)/betas0)^2)     cat(\"Relative change in betas\",chg,\"\\n\")     if(chg < .0001) done <- TRUE        }    libs(lattice)   xyplot(yield ~ theta|gen, data=dat, xlab=\"theta (environment effect)\",          main=\"digby.jointregression - stability plot\")    # Dibgy Table 2, modified joint regression      # Genotype sensitivities (slopes)   round(betas,3) # Match Digby table 2, Modified joint regression sensitivity   # genG01 genG02 genG03 genG04 genG05 genG06 genG07 genG08 genG09 genG10   #  0.953  0.739  1.082  1.024  1.142  0.877 1.089  0.914  1.196  0.947    # Env effects. Match Digby table 3, Modified joint reg   round(thetas,3)+1.164-.515 # Adjust intercept to match   # envE01 envE02 envE03 envE04 envE05 envE06 envE07 envE08 envE09 envE10   # -0.515 -0.578 -0.990 -1.186  1.811  1.696 -1.096  0.046  0.057  0.825   # envE11 envE12 envE13 envE14 envE15 envE16 envE17   # -0.576  1.568 -0.779 -0.692  0.836 -1.080  0.649    # Using 'gnm' gives similar results.   # libs(gnm)   # m3 <- gnm(yield ~ gen + Mult(gen,env), data=dat) # slopes negated   # round(coef(m3)[11:20],3)    # Using 'mumm' gives similar results, though gen is random and the   # coeffecients are shrunk toward 0 a bit.   if(require(\"mumm\", quietly=TRUE)) {     libs(mumm)     m1 <- mumm(yield ~ -1 + env + mp(gen, env), dat)     round(1 + ranef(m1)$`mp gen:env`,2)   }    }"},{"path":"/reference/diggle.cow.html","id":null,"dir":"Reference","previous_headings":"","what":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Bodyweight cows 2--2 factorial experiment.","code":""},{"path":"/reference/diggle.cow.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"data frame 598 observations following 5 variables. animal Animal factor, 26 levels iron Factor levels Iron, NoIron infect Factor levels Infected, NonInfected weight Weight (rounded nearest 5) kilograms day Days birth","code":""},{"path":"/reference/diggle.cow.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Diggle et al., 1994, pp. 100-101, consider experiment studied   iron dosing (none/standard) micro-organism (infected   non-infected) influence weight cows. Twenty-eight cows allocated 2--2 factorial design   factors.  calves inoculated tuberculosis six   weeks age.  six months, calves maintained   supplemental iron diet 27 months. weight animal measured 23 times,   unequally spaced. One cow died study data another   cow removed.","code":""},{"path":"/reference/diggle.cow.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Diggle, P. J., Liang, K.-Y., & Zeger, S. L. (1994).   Analysis Longitudinal Data. Page 100-101. Retrieved Oct 2011   https://www.maths.lancs.ac.uk/~diggle/lda/Datasets/","code":""},{"path":"/reference/diggle.cow.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Lepper, AWD Lewis, VM, 1989. Effects altered dietary iron   intake Mycobacterium paratuberculosis-infected dairy cattle:   sequential observations growth, iron copper metabolism   development paratuberculosis.   Research veterinary science, 46, 289--296. Arunas P. Verbyla Brian R. Cullis Michael G. Kenward   Sue J. Welham, (1999), analysis designed experiments   longitudinal data using smoothing splines. Appl. Statist.,   48, 269--311. SAS/STAT(R) 9.2 User's Guide, Second Edition.   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm#statug_glimmix_sect018.htm","code":""},{"path":"/reference/diggle.cow.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"","code":"if (FALSE) {    library(agridat)   data(diggle.cow)   dat <- diggle.cow      # Figure 1 of Verbyla 1999   libs(latticeExtra)   useOuterStrips(xyplot(weight ~ day|iron*infect, dat, group=animal,                         type='b', cex=.5,                          main=\"diggle.cow\"))      # Scaling   dat <- transform(dat, time = (day-122)/10)     if(require(\"asreml\", quietly=TRUE)) {     libs(asreml, latticeExtra)          ## # Smooth for each animal.  No treatment effects. Similar to SAS Output 38.6.9          m1 <- asreml(weight ~ 1 + lin(time) + animal + animal:lin(time), data=dat,                  random = ~ animal:spl(time))     p1 <- predict(m1, data=dat, classify=\"animal:time\",                   design.points=list(time=seq(0,65.9, length=50)))     p1 <- p1$pvals     p1 <- merge(dat, p1, all=TRUE) # to get iron/infect merged in     foo1 <- xyplot(weight ~ day|iron*infect, dat, group=animal,                    main=\"diggle.cow\")     foo2 <- xyplot(predicted.value ~ day|iron*infect, p1, type='l', group=animal)     print(foo1+foo2)   }    }"},{"path":"/reference/draper.safflower.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of safflower — draper.safflower.uniformity","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"Uniformity trial safflower Arizona 1958.","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"","code":"data(\"draper.safflower.uniformity\")"},{"path":"/reference/draper.safflower.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"data frame 640 observations following 4 variables. expt experiment row row col column yield yield per plot (grams)","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"Experiments conducted Agricultural Experiment Station Farm   Eloy, Arizona. crop harvested July 1958. crop planted two rows 12 inches apart vegetable beds 40   inches center center. test, end ranges one row plots one side   next alleys, plots gave estimates border effects. Experiment E4 (four foot test) Sandy streaks present field. Average yield 1487   lb/ac. diagonal fertility gradient field.  Widening   plot equally effective lengthening plot reduce   variability.  optimum plot size 1 bed wide, 24 feet long.   Considering economic costs, optimum size 1 bed, 12 feet long. Field width: 16 beds * 3.33 feet = 53 feet Field length: 18 ranges * 4 feet = 72 feet Experiment E5 (five foot test) Average yield 2517 lb/ac, typical crop.  Combining plots   lengthwise effective widening plots, order   reduce variability. optimum plot size 1 bed wide, 25 feet   long.   Considering economic costs, optimum size 1 bed, 18 feet long. Field width: 14 beds * 3.33 feet = 46.6 feet. Field length: 18 ranges * 5 feet = 90 feet. Data Table & B Draper, p. 53-56.   Typed K.Wright.","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"Arlen D. Draper. (1959).   Optimum plot size shape safflower yield tests.   Dissertation. University Arizona.   https://hdl.handle.net/10150/319371   Page 53-56.","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"None","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(draper.safflower.uniformity)   dat4 <- subset(draper.safflower.uniformity, expt==\"E4\")   dat5 <- subset(draper.safflower.uniformity, expt==\"E5\")      libs(desplot)   desplot(dat4, yield~col*row,           flip=TRUE, tick=TRUE, aspect=72/53, # true aspect           main=\"draper.safflower.uniformity (four foot)\")      desplot(dat5, yield~col*row,           flip=TRUE, tick=TRUE, aspect=90/46, # true aspect           main=\"draper.safflower.uniformity (five foot)\")    # Draper appears to removed the border plots, but it is difficult to   # match his results exactly   dat4 <- subset(dat4, row>1 & row<20)   dat4 <- subset(dat4, col>1 & col<17)   dat5 <- subset(dat5, row>1 & row<20)   dat5 <- subset(dat5, col<15)   # Convert gm/plot to pounds/acre. Draper (p. 20) says 1487 pounds/acre   mean(dat4$yield) / 453.592 / (3.33*4) * 43560 # 1472 lb/ac      libs(agricolae)   libs(reshape2)      s4 <- index.smith(acast(dat4, row~col, value.var='yield'),                     main=\"draper.safflower.uniformity (four foot)\",                     col=\"red\")$uni   s4 # match Draper table 2, p 22      ## s5 <- index.smith(acast(dat5, row~col, value.var='yield'),   ##                   main=\"draper.safflower.uniformity (five foot)\",   ##                   col=\"red\")$uni   ## s5 # match Draper table 1, p 21    }"},{"path":"/reference/ducker.groundnut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of groundnut — ducker.groundnut.uniformity","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"Uniformity trial groundnut.","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"","code":"data(\"ducker.groundnut.uniformity\")"},{"path":"/reference/ducker.groundnut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"data frame 215 observations following 3 variables. row row ordinate col column ordinate yield yield, pounds per plot","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"experiment grown Nyasaland, Cotton Experiment Station,   Domira Bay, 1942-43. 44x5 identical plots, 1/220 acre   area. Single ridge plots one chain length, one yard   apart. Two rows groundnuts planted per ridge, staggered 1   foot holes. Holes spaced 18 inches x 12 inches. Two seeds   planted per hole. yield values pounds nuts shell. Field length: 5 plots, 22 yards = 110 yards. Field width: 44 plots, 1 yard = 44 yards. data made available special help staff   Rothamsted Research Library. Data typed K.Wright checked hand.","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 2.","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"None","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(ducker.groundnut.uniformity)   dat <- ducker.groundnut.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=110/44,           main=\"ducker.groundnut.uniformity\") }"},{"path":"/reference/durban.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Sugar beet yields with competition effects — durban.competition","title":"Sugar beet yields with competition effects — durban.competition","text":"Sugar beet yields competition effects","code":""},{"path":"/reference/durban.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Sugar beet yields with competition effects — durban.competition","text":"data frame 114 observations following 5 variables. gen Genotype factor, 36 levels plus Border col Column block Row/Block wheel Position relative wheel tracks yield Root yields, kg/plot","code":""},{"path":"/reference/durban.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Sugar beet yields with competition effects — durban.competition","text":"sugar-beet trial conducted 1979. Single-row plots, 12 m long, 0.5 m rows.  block made   36 genotypes laid side side.  Guard/border plots   end.  Root yields collected. Wheel tracks located columns 1 2, columns   5 6, set six plots.  genotype randomly   allocated pair plots (1,6), (2,5), (3,4) across   three reps.  Wheel effect significant _this_ trial. Field width: 18m + 1m guard rows = 19m Field length: 3 blocks * 12m + 2*0.5m spacing = 37m   Retrieved   https://www.ma.hw.ac.uk/~iain/research/JAgSciData/data/Trial1.dat Used permission Iain Currie.","code":""},{"path":"/reference/durban.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Sugar beet yields with competition effects — durban.competition","text":"Durban, M., Currie, . R. Kempton, 2001.   Adjusting fertility competition variety trials.   J. Agricultural Science, 136, 129--140.","code":""},{"path":"/reference/durban.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Sugar beet yields with competition effects — durban.competition","text":"","code":"if (FALSE) {  library(agridat)  data(durban.competition) dat <- durban.competition  # Check that genotypes were balanced across wheel tracks. with(dat, table(gen,wheel))  libs(desplot) desplot(dat, yield ~ col*block,         out1=block, text=gen, col=wheel, aspect=37/19, # true aspect         main=\"durban.competition\")   # Calculate residual after removing block/genotype effects m1 <- lm(yield ~ gen + block, data=dat) dat$res <- resid(m1)  ## desplot(dat, res ~ col*block, out1=block, text=gen, col=wheel, ##         main=\"durban.competition - residuals\")  # Calculate mean of neighboring plots dat$comp <- NA dat$comp[3:36] <- ( dat$yield[2:35] + dat$yield[4:37] ) / 2 dat$comp[41:74] <- ( dat$yield[40:73] + dat$yield[42:75] ) / 2 dat$comp[79:112] <- ( dat$yield[78:111] + dat$yield[80:113] ) / 2  # Demonstrate the competition effect # Competitor plots have low/high yield -> residuals are negative/positive libs(lattice) xyplot(res~comp, dat, type=c('p','r'), main=\"durban.competition\",        xlab=\"Average yield of neighboring plots\", ylab=\"Residual\")  }"},{"path":"/reference/durban.rowcol.html","id":null,"dir":"Reference","previous_headings":"","what":"Row-column experiment of spring barley, many varieties — durban.rowcol","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Row-column experiment spring barley, many varieties","code":""},{"path":"/reference/durban.rowcol.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"data frame 544 observations following 5 variables. row row bed bed (column) rep rep, 2 levels gen genotype, 272 levels yield yield, tonnes/ha","code":""},{"path":"/reference/durban.rowcol.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Spring barley variety trial 272 entries (260 new varieties, 12   control). Grown Scottish Crop Research Institute 1998.   Row-column design 2 reps, 16 rows (north/south) 34 beds   (east/west).   land sloped downward row 16 row 1.  Plot yields   converted tonnes per hectare. Plot dimensions given. Used permission Maria Durban.","code":""},{"path":"/reference/durban.rowcol.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Durban, Maria Hackett, Christine McNicol, James   Newton, Adrian Thomas, William Currie, Iain. 2003.   practical use semiparametric models field trials,   Journal Agric Biological Envir Stats, 8, 48-66.   https://doi.org/10.1198/1085711031265","code":""},{"path":"/reference/durban.rowcol.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Edmondson, Rodney (2020).   Multi-level Block Designs Comparative Experiments.   J Agric, Biol, Env Stats.   https://doi.org/10.1007/s13253-020-00416-0","code":""},{"path":"/reference/durban.rowcol.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"","code":"if (FALSE) {    library(agridat)   data(durban.rowcol)   dat <- durban.rowcol      libs(desplot)   desplot(dat, yield~bed*row,           out1=rep, num=gen, # aspect unknown           main=\"durban.rowcol\")       # Durban 2003 Figure 1   m10 <- lm(yield~gen, data=dat)   dat$resid <- m10$resid   ## libs(lattice)   ## xyplot(resid~row, dat, type=c('p','smooth'), main=\"durban.rowcol\")   ## xyplot(resid~bed, dat, type=c('p','smooth'), main=\"durban.rowcol\")      # Figure 3   libs(lattice)   xyplot(resid ~ bed|factor(row), data=dat,          main=\"durban.rowcol\",          type=c('p','smooth'))          # Figure 5 - field trend   # note, Durban used gam package like this   # m1lo <- gam(yield ~ gen + lo(row, span=10/16) + lo(bed, span=9/34), data=dat)   libs(mgcv)   m1lo <- gam(yield ~ gen + s(row) + s(bed, k=5), data=dat)   new1 <- expand.grid(row=unique(dat$row),bed=unique(dat$bed))   new1 <- cbind(new1, gen=\"G001\")   p1lo <- predict(m1lo, newdata=new1)   libs(lattice)   wireframe(p1lo~row+bed, new1, aspect=c(1,.5), main=\"Field trend\")     if(require(\"asreml\", quietly=TRUE)) {     libs(asreml)      dat <- transform(dat, rowf=factor(row), bedf=factor(bed))     dat <- dat[order(dat$rowf, dat$bedf),]      m1a1 <- asreml(yield~gen + lin(rowf) + lin(bedf), data=dat,                    random=~spl(rowf) + spl(bedf) + units,                    family=asr_gaussian(dispersion=1))     m1a2 <- asreml(yield~gen + lin(rowf) + lin(bedf), data=dat,                    random=~spl(rowf) + spl(bedf) + units,                    resid = ~ar1(rowf):ar1(bedf))     m1a2 <- update(m1a2)     m1a3 <- asreml(yield~gen, data=dat, random=~units,                    resid = ~ar1(rowf):ar1(bedf))          # Figure 7     libs(lattice)     v7a <- asr_varioGram(x=dat$bedf, y=dat$rowf, z=m1a3$residuals)     wireframe(gamma ~ x*y, v7a, aspect=c(1,.5)) # Fig 7a          v7b <- asr_varioGram(x=dat$bedf, y=dat$rowf, z=m1a2$residuals)     wireframe(gamma ~ x*y, v7b, aspect=c(1,.5)) # Fig 7b          v7c <- asr_varioGram(x=dat$bedf, y=dat$rowf, z=m1lo$residuals)     wireframe(gamma ~ x*y, v7c, aspect=c(1,.5)) # Fig 7c   }    }"},{"path":"/reference/durban.splitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"Split-plot experiment barley fungicide treatments","code":""},{"path":"/reference/durban.splitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"data frame 560 observations following 6 variables. yield yield, tonnes/ha block block, 4 levels gen genotype, 70 levels fung fungicide, 2 levels row row bed bed (column)","code":""},{"path":"/reference/durban.splitplot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"Grown 1995-1996 Scottish Crop Research Institute.   Split-plot design 4 blocks, 2 whole-plot fungicide treatments,   70 barley varieties variety mixes.  Total area 10 rows   (north/south) 56 beds (east/west). Used permission Maria Durban.","code":""},{"path":"/reference/durban.splitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"Durban, Maria Hackett, Christine McNicol, James   Newton, Adrian Thomas, William Currie, Iain. 2003.   practical use semiparametric models field trials,   Journal Agric Biological Envir Stats, 8, 48-66.   https://doi.org/10.1198/1085711031265.","code":""},{"path":"/reference/durban.splitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"","code":"if (FALSE) {    library(agridat)   data(durban.splitplot)   dat <- durban.splitplot    libs(desplot)   desplot(dat, yield~bed*row,           out1=block, out2=fung, num=gen, # aspect unknown           main=\"durban.splitplot\")     # Durban 2003, Figure 2   m20 <- lm(yield~gen + fung + gen:fung, data=dat)   dat$resid <- m20$resid   ## libs(lattice)   ## xyplot(resid~row, dat, type=c('p','smooth'), main=\"durban.splitplot\")   ## xyplot(resid~bed, dat, type=c('p','smooth'), main=\"durban.splitplot\")    # Figure 4 doesn't quite match due to different break points   libs(lattice)   xyplot(resid ~ bed|factor(row), data=dat,          main=\"durban.splitplot\",          type=c('p','smooth'))     # Figure 6 - field trend   # note, Durban used gam package like this   # m2lo <- gam(yield ~ gen*fung + lo(row, bed, span=.082), data=dat)   libs(mgcv)   m2lo <- gam(yield ~ gen*fung + s(row, bed,k=45), data=dat)   new2 <- expand.grid(row=unique(dat$row), bed=unique(dat$bed))   new2 <- cbind(new2, gen=\"G01\", fung=\"F1\")   p2lo <- predict(m2lo, newdata=new2)   libs(lattice)   wireframe(p2lo~row+bed, new2, aspect=c(1,.5),             main=\"durban.splitplot - Field trend\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          # Table 5, variance components.  Table 6, F tests     dat <- transform(dat, rowf=factor(row), bedf=factor(bed))     dat <- dat[order(dat$rowf, dat$bedf),]     m2a2 <- asreml(yield ~ gen*fung, random=~block/fung+units, data=dat,                    resid =~ar1v(rowf):ar1(bedf))     m2a2 <- update(m2a2)          lucid::vc(m2a2)     ##             effect component std.error z.ratio bound      ##              block   0              NA      NA     B  NA     ##         block:fung   0.01206  0.01512      0.8     P   0     ##              units   0.02463  0.002465    10       P   0     ##       rowf:bedf(R)   1              NA      NA     F   0     ## rowf:bedf!rowf!cor   0.8836   0.03646     24       U   0     ## rowf:bedf!rowf!var   0.1261   0.04434      2.8     P   0     ## rowf:bedf!bedf!cor   0.9202   0.02846     32       U   0          wald(m2a2)   }    }"},{"path":"/reference/eden.nonnormal.html","id":null,"dir":"Reference","previous_headings":"","what":"Height of barley plants in a study of non-normal data — eden.nonnormal","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"Height barley plants study non-normal data.","code":""},{"path":"/reference/eden.nonnormal.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"","code":"data(\"eden.nonnormal\")"},{"path":"/reference/eden.nonnormal.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"data frame 256 observations following 3 variables. pos position within block block block (numeric) height height wheat plant","code":""},{"path":"/reference/eden.nonnormal.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"data used early example permutation test. Eden & Yates used data consider impact non-normal data   validity hypothesis test assumes normality.    concluded skew data negatively affect analysis   variance. Grown Rothamsted. Eight blocks Yeoman II wheat.  Sampling   blocks quarter-meter rows, four times row.  Rows   selected random. Position  within rows partly controlled   make use whole length block.  Plants ends   sub-unit measured. Shoot height measured ground level   auricle last expanded leaf.","code":""},{"path":"/reference/eden.nonnormal.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"T. Eden, F. Yates (1933).   validity Fisher's z test applied actual example non-normal data.   Journal Agric Science, 23, 6-17.   https://doi.org/10.1017/S0021859600052862","code":""},{"path":"/reference/eden.nonnormal.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"Kenneth J. Berry, Paul W. Mielke, Jr., Janis E. Johnston   Permutation Statistical Methods: Integrated Approach.","code":""},{"path":"/reference/eden.nonnormal.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"","code":"if (FALSE) {  library(agridat) data(eden.nonnormal) dat <- eden.nonnormal mean(dat$height) # 55.23 matches Eden table 1  # Eden figure 2 libs(dplyr, lattice) # Blocks had different means, so substract block mean from each datum dat <- group_by(dat, block) dat <- mutate(dat, blkmn=mean(height)) dat <- transform(dat, dev=height-blkmn)  histogram( ~ dev, data=dat, breaks=seq(from=-40, to=30, by=2.5),           xlab=\"Deviations from block means\",           main=\"eden.nonnormal - heights skewed left\")    # calculate skewness, permutation       libs(dplyr, lattice, latticeExtra)      # Eden table 1   # anova(aov(height ~ factor(block), data=dat))      # Eden table 2,3. Note, this may be a different definition of skewness   # than is commonly used today (e.g. e1071::skewness).   skew <- function(x){     n <- length(x)     x <- x - mean(x)     s1 = sum(x)     s2 = sum(x^2)     s3 = sum(x^3)     k3=n/((n-1)*(n-2)) * s3 -3/n*s2*s1 + 2/n^2 * s1^3     return(k3)   }   # Negative values indicate data are skewed left   dat <- group_by(dat, block)   summarize(dat, s1=sum(height),s2=sum(height^2), mean2=var(height), k3=skew(height))   ##   block     s1       s2     mean2         k3   ##   <int>  <dbl>    <dbl>     <dbl>      <dbl>   ## 1     1 1682.0  95929.5 242.56048 -1268.5210   ## 2     2 1858.0 111661.5 121.97984 -1751.9919   ## 3     3 1809.5 108966.8 214.36064 -3172.5284   ## 4     4 1912.0 121748.5 242.14516 -2548.2194   ## 5     5 1722.0  99026.5 205.20565  -559.0629   ## 6     6 1339.0  63077.0 227.36190  -801.2740   ## 7     7 1963.0 123052.5  84.99093  -713.2595   ## 8     8 1854.0 112366.0 159.67339 -1061.9919    # Another way to view skewness with qq plot. Panel 3 most skewed.   qqmath( ~ dev|factor(block), data=dat,          as.table=TRUE,          ylab=\"Deviations from block means\",          panel = function(x, ...) {            panel.qqmathline(x, ...)            panel.qqmath(x, ...)          })    # Now, permutation test.   # Eden: \"By a process of amalgamation the eight sets of 32 observations were   # reduced to eight sets of four and the data treated as a potential   # layout for a 32-plot trial\".   dat2 <- transform(dat, grp = rep(1:4, each=8))   dat2 <- aggregate(height ~ grp+block, dat2, sum)   dat2$trt <- rep(letters[1:4], 8)   dat2$block <- factor(dat2$block)    # Treatments were assigned at random 1000 times   set.seed(54323)   fobs <- rep(NA, 1000)   for(i in 1:1000){     # randomize treatments within each block     # trick from https://stackoverflow.com/questions/25085537     dat2$trt <- with(dat2, ave(trt, block, FUN = sample))     fobs[i] <- anova(aov(height ~ block + trt, dat2))[\"trt\",\"F value\"]   }    # F distribution with 3,21 deg freedom   # Similar to Eden's figure 4, but on a different horizontal scale   xval <- seq(from=0,to=max(fobs), length=50)   yval <- df(xval, df1 = 3, df2 = 21)   # Re-scale, 10 = max of historgram, 0.7 = max of density   histogram( ~ fobs, breaks=xval,             xlab=\"F value\",             main=\"Observed (histogram) & theoretical (line) F values\") +     xyplot((10/.7)* yval ~ xval, type=\"l\", lwd=2)  }"},{"path":"/reference/eden.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"Potato yields response potash nitrogen fertilizer.   Data Fisher's 1929 paper Studies Crop Variation 6.   different design used year.","code":""},{"path":"/reference/eden.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"data frame 225 observations following 9 variables. year year/type factor yield yield, pounds per plot block block row row col column trt treatment factor nitro nitrogen fertilizer, cwt/acre potash potash fertilizer, cwt/acre ptype potash type","code":""},{"path":"/reference/eden.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"data interest show gradual development   experimental designs agriculture. 1925/1926 potato variety Kerr's Pink.  1927 Arran   Comrade. 1925a/1926a qualitative experiments, treatments   O=None, S=Sulfate, M=Muriate, P=Potash manure salts.   design Latin Square. 1925/1926b/1927 experiments RCB designs treatment codes   defining amount type fertilizer used.  Note: 't'   treatment defined original paper.","code":""},{"path":"/reference/eden.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"T Eden R Fisher, 1929.   Studies Crop Variation. VI. Experiments response   potato potash nitrogen.   Journal Agricultural Science, 19: 201-213.","code":""},{"path":"/reference/eden.potato.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/eden.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"","code":"if (FALSE) {  library(agridat) data(eden.potato) dat <- eden.potato  # 1925 qualitative d5a <- subset(dat, year=='1925a') libs(desplot) desplot(d5a, trt~col*row,         text=yield, cex=1, shorten='no', # aspect unknown         main=\"eden.potato: 1925 qualitative\") anova(m5a <- aov(yield~trt+factor(row)+factor(col), d5a)) # table 2  # 1926 qualitative d6a <- subset(dat, year=='1926a') libs(desplot) desplot(d6a, trt~col*row,         text=yield, cex=1, shorten='no', # aspect unknown         main=\"eden.potato: 1926 qualitative\") anova(m6a <- aov(yield~trt+factor(row)+factor(col), d6a)) # table 4  # 1925 quantitative d5 <- subset(dat, year=='1925b') libs(desplot) desplot(d5, yield ~ col*row,         out1=block, text=trt, cex=1, # aspect unknown         main=\"eden.potato: 1925 quantitative\")  # Trt 't' not defined, seems to be the same as 'a' libs(lattice) dotplot(trt~yield|block, d5,         # aspect unknown         main=\"eden.potato: 1925 quantitative\") anova(m5 <- aov(yield~trt+block, d5)) # table 6  # 1926 quantitative d6 <- subset(dat, year=='1926b') libs(desplot) desplot(d6, yield ~ col*row,         out1=block, text=trt, cex=1, # aspect unknown         main=\"eden.potato: 1926 quantitative\") anova(m6 <- aov(yield~trt+block, d6)) # table 7  # 1927 qualitative + quantitative d7 <- droplevels(subset(dat, year==1927)) libs(desplot) desplot(d7, yield ~ col*row,         out1=block, text=trt, cex=1, col=ptype, # aspect unknown       main=\"eden.potato: 1927 qualitative + quantitative\")  # Table 8.  Anova, mean yield tons / acre anova(m7 <- aov(yield~trt+block+ptype + ptype:potash, d7)) libs(reshape2) me7 <- melt(d7, measure.vars='yield') acast(me7, potash~nitro, fun=mean) * 40/2240 # English ton = 2240 pounds acast(me7, potash~ptype, fun=mean) * 40/2240  }"},{"path":"/reference/eden.tea.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tea — eden.tea.uniformity","title":"Uniformity trial of tea — eden.tea.uniformity","text":"Uniformity trial tea Ceylon.","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tea — eden.tea.uniformity","text":"","code":"data(\"eden.tea.uniformity\")"},{"path":"/reference/eden.tea.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tea — eden.tea.uniformity","text":"data frame 144 observations following 4 variables. entry entry number yield yield row row col column","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tea — eden.tea.uniformity","text":"Tea plucking Ceylon extended 20 Apr 1928 10 Dec 1929.   42 pluckings. clear units , paper mentions \"quarter pound\". field divided 144 plots 1/72 acre = 605 sq ft. plot contained 6 rows bushes, approximately 42 bushes. (  row thus 7 bushes). Plots row 12 high hillside, plots row 1 low hill. Note: assume plots roughly square: 6 rows 7 bushes. Field width: 12 plots * 24.6 feet = 295 feet Field length: 12 plots * 24.6 feet = 295 feet Data typed K.Wright.   Although pdf paper crease across page hid   digits, row column totals included paper   allowed re-construction missing digits.","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tea — eden.tea.uniformity","text":"T. Eden. (1931).   Studies yield tea. 1. experimental errors field   experiments tea.   Agricultural Science, 21, 547-573.   https://doi.org/10.1017/S0021859600088511","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tea — eden.tea.uniformity","text":"None","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tea — eden.tea.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(eden.tea.uniformity)   dat <- eden.tea.uniformity      # sum(dat$yield) # 140050.6 matches total yield in appendix A   # mean(dat$yield) # 972.574 match page 5554      m1 <- aov(yield ~ factor(entry) + factor(row) + factor(col), data=dat)   summary(m1)      libs(desplot)   desplot(dat, yield ~ col*row,           aspect=1,           main=\"eden.tea.uniformity\")    }"},{"path":"/reference/edwards.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"Multi-environment trial oats 5 locations, 7 years, 3   replicates trial.","code":""},{"path":"/reference/edwards.oats.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"","code":"data(\"edwards.oats\")"},{"path":"/reference/edwards.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"data frame 3694 observations following 7 variables. eid Environment identification (factor) year Year loc Location name block Block gen Genotype name yield Yield testwt Test weight","code":""},{"path":"/reference/edwards.oats.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"data comes breeding program, usual   pattern (1) genotypes entering/leaving program (2) check   genotypes remain throughout duration program. Experiments conducted Iowa State University Oat Variety   Trial years 1997 2003. year 40 genotypes, 30 released checks   10 experimental lines. genotype appeared range 3   34 year-loc combinations. trials grown five locations Iowa:   Ames, Nashua, Crawfordsville, Lewis, Sutherland.   1998 trial grown Sutherland.   3 blocks trial. Five genotypes removed data low yields (included ). environment identifaction values Edwards (2006)   table 1. Electronic data supplied Jode Edwards.","code":""},{"path":"/reference/edwards.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"Jode W. Edwards, Jean-Luc Jannink (2006).   Bayesian Modeling Heterogeneous Error Genotype x Environment Interaction Variances.   Crop Science, 46, 820-833.   https://dx.doi.org/10.2135/cropsci2005.0164","code":""},{"path":"/reference/edwards.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"None","code":""},{"path":"/reference/edwards.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"","code":"if (FALSE) {    library(agridat)   libs(dplyr,lattice, reshape2, stringr)   data(edwards.oats)   dat <- edwards.oats   dat$env <- paste0(dat$year,\".\",dat$loc)   dat$eid <- factor(dat$eid)   mat <- reshape2::acast(dat, env ~ gen,                          fun.aggregate=mean, value.var=\"yield\", na.rm=TRUE)   lattice::levelplot(mat, aspect=\"m\",                      main=\"edwards.oats\",                      xlab=\"environment\", ylab=\"genotype\",                      scales=list(x=list(rot=90)))    # Calculate BLUEs of gen/env effects   m1 <- lm(yield ~ gen+eid, dat)    gg <- coef(m1)[2:80]   names(gg) <- stringr::str_replace(names(gg), \"gen\", \"\")   gg <- c(0,gg)   names(gg)[1] <- \"ACStewart\"    ee <- coef(m1)[81:113]   names(ee) <- stringr::str_replace(names(ee), \"eid\", \"\")   ee <- c(0,ee)   names(ee)[1] <- \"1\"      # Subtract gen/env coefs from yield values   dat2 <- dat   dat2$gencoef <- gg[match(dat2$gen, names(gg))]   dat2$envcoef <- ee[match(dat2$eid, names(ee))]   dat2 <- dplyr::mutate(dat2, y = yield - gencoef - envcoef)    # Calculate variance for each gen*env. Shape of the graph is vaguely   # similar to Fig 2 of Edwards et al (2006), who used a Bayesian model   dat2 <- group_by(dat2, gen, eid)   dat2sum <- summarize(dat2, stddev = sd(y))   bwplot(stddev ~ eid, dat2sum)  }"},{"path":"/reference/engelstad.nitro.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Corn yield response nitrogen fertilizer single variety   corn two locations five years","code":""},{"path":"/reference/engelstad.nitro.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"data frame 60 observations following 4 variables. loc location, 2 levels year year, 1962-1966 nitro nitrogen fertilizer kg/ha yield yield, quintals/ha","code":""},{"path":"/reference/engelstad.nitro.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Corn yield response nitrogen fertilizer single variety   corn two locations Tennessee five years.   yield data mean 9 replicates.  original   paper fits quadratic curves data.  Schabenberger Pierce fit   multiple models including linear plateau.  example fits   quadratic plateau one year/loc.  original paper, 1965   1966 data Knoxville location used appeared   response due nitrogen minimal 1965 nonexistant   1966.  economic optimum can found setting tangent   equal ratio (fertilizer price)/(grain price).","code":""},{"path":"/reference/engelstad.nitro.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Engelstad, OP Parks, WL.  1971.   Variability Optimum N Rates Corn.   Agronomy Journal, 63, 21--23.","code":""},{"path":"/reference/engelstad.nitro.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Schabenberger, O. Pierce, F.J., 2002.   Contemporary statistical models plant soil sciences,   CRC. Page 254-259.","code":""},{"path":"/reference/engelstad.nitro.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"","code":"library(agridat) data(engelstad.nitro) dat <- engelstad.nitro  libs(latticeExtra) useOuterStrips(xyplot(yield ~ nitro | factor(year)*loc, dat,                       main=\"engelstad.nitro\"))   # Fit a quadratic plateau model to one year/loc j62 <- droplevels(subset(dat, loc==\"Jackson\" & year==1962)) # ymax is maximum yield, M is the change point, k affects curvature m1 <-  nls(yield ~ ymax*(nitro > M) +            (ymax - (k/2) * (M-nitro)^2) * (nitro < M),            data= j62,            start=list(ymax=80, M=150, k=.01))  # Plot the raw data and model newdat <- data.frame(nitro=seq(0,max(dat$nitro))) p1 <- predict(m1, new=newdat) plot(yield ~ nitro, j62) lines(p1 ~ newdat$nitro, col=\"blue\") title(\"engelstad.nitro: quadratic plateau at Jackson 1962\")   # Optimum nitro level ignoring prices = 225 coef(m1)['M'] #>        M  #> 225.3404   # Optimum nitro level using $0.11 for N cost, $1.15 for grain price = 140 # Set the first derivative equal to N/corn price, k(M-nitro)=.11/1.15 coef(m1)['M']-(.11/1.15)/coef(m1)['k'] #>        M  #> 140.7837"},{"path":"/reference/evans.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"Uniformity trial sugarcane Mauritius.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"","code":"data(\"evans.sugarcane.uniformity\")"},{"path":"/reference/evans.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"data frame 710 observations following 3 variables. row row ordinate col column ordinate yield plot yield","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"field ratoon canes harvested 20-hole plots. Described letter Frank Yates written 21 May 1935. Field length: 5 plots x 50 feet (20 stools per plot; 30 inches stools) = 250 feet Field width: 142 plots x 5 feet = 710 feet data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 8.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"None.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"","code":"if (FALSE) {   data(evans.sugarcane.uniformity)   dat <- evans.sugarcane.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(5*50)/(142*5), # true aspect           main=\"evans.sugarcane.uniformity\")    table( substring(dat$yield,3) ) # yields ending in 0,5 are much more common }"},{"path":"/reference/fan.stability.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize hybrids in China — fan.stability","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"Yield 13 hybrids, grown 10 locations across 2 years.  Conducted   Yunnan, China.","code":""},{"path":"/reference/fan.stability.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"data frame 260 observations following 5 variables. gen genotype maturity maturity, days year year loc location yield yield, Mg/ha","code":""},{"path":"/reference/fan.stability.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"Data mean 3 reps. data used conduct stability analysis yield. Used permission Manjit Kang.","code":""},{"path":"/reference/fan.stability.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"Fan, X.M. Kang, M.S. Chen, H. Zhang, Y. Tan, J. Xu, C. (2007).   Yield stability maize hybrids evaluated multi-environment trials Yunnan, China.   Agronomy Journal, 99, 220-228.   https://doi.org/10.2134/agronj2006.0144","code":""},{"path":"/reference/fan.stability.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"","code":"if (FALSE) {  library(agridat) data(fan.stability) dat <- fan.stability  dat$env <- factor(paste(dat$loc, dat$year, sep=\"\")) libs(lattice) dotplot(gen~yield|env, dat, main=\"fan.stability\")  libs(reshape2, agricolae) dm <- acast(dat, gen~env, value.var='yield') # Use 0.464 as pooled error from ANOVA.  Calculate yield mean/stability. stability.par(dm, rep=3, MSerror=0.464) # Table 5 of Fan et al.  }"},{"path":"/reference/federer.diagcheck.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat experiment with diagonal checks — federer.diagcheck","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"Wheat experiment augmented two check varieties diagonal strips.","code":""},{"path":"/reference/federer.diagcheck.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"data frame 180 observations following 4 variables. row row col column gen genotype, 120 levels yield yield","code":""},{"path":"/reference/federer.diagcheck.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"experiment conducted Matthew Reynolds, CIMMYT.    180 plots field, 60 diagonal checks (G121 G122)   120 new varieties. Federer used data multiple papers illustrate use   orthogonal polynomials model field trends related   genetic effects. Note: Federer Wolfinger (2003) provide SAS program analysis   data.  However, SAS program used analyze   data, results match results given Federer (1998)   Federer Wolfinger (2003).  differences slight,   suggests typographical error presentation data. R code provides results consistent SAS   code Federer & Wolfinger (2003) applied   version data. Plot dimensions given.","code":""},{"path":"/reference/federer.diagcheck.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"Federer, Walter T. 1998. Recovery interblock, intergradient,   intervariety information incomplete block lattice rectangle   design experiments. Biometrics, 54, 471--481.   https://doi.org/10.2307/3109756","code":""},{"path":"/reference/federer.diagcheck.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"Walter T Federer Russell D Wolfinger, 2003.   Augmented Row-Column Design Trend Analysis, chapter 28   Handbook Formulas Software Plant Geneticists     Breeders, Haworth Press.","code":""},{"path":"/reference/federer.diagcheck.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"","code":"if (FALSE) {    library(agridat)   data(federer.diagcheck)   dat <- federer.diagcheck   dat$check <- ifelse(dat$gen == \"G121\" | dat$gen==\"G122\", \"C\",\"N\")    # Show the layout as in Federer 1998.   libs(desplot)   desplot(dat, yield ~ col*row,           text=gen, show.key=FALSE, # aspect unknown           shorten='no', col=check, cex=.8, col.text=c(\"yellow\",\"gray\"),           main=\"federer.diagcheck\")     # Now reproduce the analysis of Federer 2003.      # Only to match SAS results   dat$row <- 16 - dat$row   dat <- dat[order(dat$col, dat$row), ]      # Add row / column polynomials to the data.   # The scaling factors sqrt() are arbitrary, but used to match SAS   nr <- length(unique(dat$row))   nc <- length(unique(dat$col))   rpoly <- poly(dat$row, degree=10) * sqrt(nc)   cpoly <- poly(dat$col, degree=10) * sqrt(nr)   dat <- transform(dat,                    c1 = cpoly[,1], c2 = cpoly[,2], c3 = cpoly[,3],                    c4 = cpoly[,4], c6 = cpoly[,6], c8 = cpoly[,8],                    r1 = rpoly[,1], r2 = rpoly[,2], r3 = rpoly[,3],                    r4 = rpoly[,4], r8 = rpoly[,8], r10 = rpoly[,10])   dat$trtn <- ifelse(dat$gen == \"G121\" | dat$gen==\"G122\", dat$gen, \"G999\")   dat$new <- ifelse(dat$gen == \"G121\" | dat$gen==\"G122\", \"N\", \"Y\")   dat <- transform(dat, trtn=factor(trtn), new=factor(new))      m1 <- lm(yield ~ c1 + c2 + c3 + c4 + c6 + c8            + r1 + r2 + r4 + r8 + r10            + c1:r1 + c2:r1 + c3:r1 + gen, data = dat)   # To get Type III SS use the following   # libs(car)   # car::Anova(m1, type=3) # Matches PROC GLM output   ##                Sum Sq  Df  F value    Pr(>F)       ## (Intercept)  538948   1 159.5804 3.103e-16 ***   ## c1            13781   1   4.0806 0.0494940 *     ## c2            51102   1  15.1312 0.0003354 ***   ## c3            45735   1  13.5419 0.0006332 ***   ## c4            24670   1   7.3048 0.0097349 **    ## ...         # lmer   libs(lme4,lucid)    # \"group\" for all data   dat$one <- factor(rep(1, nrow(dat)))      # lmer with bobyqa (default)   m2b <- lmer(yield ~ trtn + (0 + r1 + r2 + r4 + r8 + r10 +                                 c1 + c2 + c3 + c4 + c6 +                                 c8 + r1:c1 + r1:c2 + r1:c3 || one) +                 (1|new:gen),               data = dat,               control=lmerControl(check.nlev.gtr.1=\"ignore\"))   vc(m2b)   ##      grp        var1 var2     vcov  sdcor   ##  new.gen (Intercept) <NA>   2869    53.57   ##      one       r1:c3 <NA>   5532    74.37   ##    one.1       r1:c2 <NA>  58230   241.3   ##    one.2       r1:c1 <NA> 128000   357.8   ##    one.3          c8 <NA>   6456    80.35   ##    one.4          c6 <NA>   1400    37.41   ##    one.5          c4 <NA>   1792    42.33   ##    one.6          c3 <NA>   2549    50.49   ##    one.7          c2 <NA>   5942    77.08   ##    one.8          c1 <NA>      0     0   ##    one.9         r10 <NA>   1133    33.66   ##   one.10          r8 <NA>   1355    36.81   ##   one.11          r4 <NA>   2269    47.63   ##   one.12          r2 <NA>    241.8  15.55   ##   one.13          r1 <NA>   9200    95.92   ## Residual        <NA> <NA>   4412    66.42      # lmer with Nelder_Mead gives 'wrong' results   ## m2n <- lmer(yield ~ trtn + (0 + r1 + r2 + r4 + r8 + r10 +   ##             c1 + c2 + c3 + c4 + c6 + c8 + r1:c1 + r1:c2 + r1:c3 || one) +   ##             (1|new:gen)   ##             , data = dat,   ##             control=lmerControl(optimizer=\"Nelder_Mead\",   ##                                 check.nlev.gtr.1=\"ignore\"))   ## vc(m2n)   ##    groups        name variance   stddev   ##  new.gen  (Intercept)   3228    56.82   ##  one      r1:c3         7688    87.68   ##  one.1    r1:c2        69750   264.1   ##  one.2    r1:c1       107400   327.8   ##  one.3    c8            6787    82.38   ##  one.4    c6            1636    40.45   ##  one.5    c4           12270   110.8   ##  one.6    c3            2686    51.83   ##  one.7    c2            7645    87.43   ##  one.8    c1               0     0.0351   ##  one.9    r10           1976    44.45   ##  one.10   r8            1241    35.23   ##  one.11   r4            2811    53.02   ##  one.12   r2             928.2  30.47   ##  one.13   r1           10360   101.8   ##  Residual               4127    64.24    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          m3 <- asreml(yield ~ -1 + trtn, data=dat,                  random = ~ r1 + r2 + r4 + r8 + r10 +                    c1 + c2 + c3 + c4 + c6 + c8 +                    r1:c1 + r1:c2 + r1:c3 + new:gen)     ## coef(m3)     ## # REML cultivar means.  Very similar to Federer table 2.     ## rev(sort(round(coef(m3)$fixed[3] + coef(m3)$random[137:256,],0)))     ## ## gen_G060 gen_G021 gen_G011 gen_G099 gen_G002     ## ##      974      949      945      944      942     ## ## gen_G118 gen_G058 gen_G035 gen_G111 gen_G120     ## ##      938      937      937      933      932     ## ## gen_G046 gen_G061 gen_G082 gen_G038 gen_G090     ## ##      932      931      927      927      926          ## vc(m3)     ## ##           effect component std.error z.ratio constr     ## ##        r1!r1.var   9201        13720    0.67    pos     ## ##        r2!r2.var    241.7       1059    0.23    pos     ## ##        r4!r4.var   2269         3915    0.58    pos     ## ##        r8!r8.var   1355         2627    0.52    pos     ## ##      r10!r10.var   1133         2312    0.49    pos     ## ##        c1!c1.var      0.01         0    4.8   bound     ## ##        c2!c2.var   5942         8969    0.66    pos     ## ##        c3!c3.var   2549         4177    0.61    pos     ## ##        c4!c4.var   1792         3106    0.58    pos     ## ##        c6!c6.var   1400         2551    0.55    pos     ## ##        c8!c8.var   6456         9702    0.67    pos     ## ##     r1:c1!r1.var 128000       189700    0.67    pos     ## ##     r1:c2!r1.var  58230        90820    0.64    pos     ## ##     r1:c3!r1.var   5531        16550    0.33    pos     ## ##  new:gen!new.var   2869         1367    2.1     pos     ## ##       R!variance   4412          915    4.8     pos   }    }"},{"path":"/reference/federer.tobacco.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"RCB tobacco, height plants exposed radiation","code":""},{"path":"/reference/federer.tobacco.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"data frame 56 observations following 4 variables. row row block block, numeric dose radiation dose, roentgens height height 20 plants, cm","code":""},{"path":"/reference/federer.tobacco.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"experiment conducted 1951 described Federer (1954).    treatment involved exposing tobacco seeds seven different doses   radiation.  seedlings transplanted field RCB   experiment 7 treatments 8 blocks.  physical layout   experiment 8 rows 7 columns. Shortly plants transplanted field became   apparent environmental gradient existed. response variable   total height (centimeters) 20 plants.","code":""},{"path":"/reference/federer.tobacco.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"Walter T Federer C S Schlottfeldt, 1954.   use covariance control gradients experiments.   Biometrics, 10, 282--290.   https://doi.org/10.2307/3001881","code":""},{"path":"/reference/federer.tobacco.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"R. D. Cook S. Weisberg (1999).   Applied Regression Including Computing Graphics. Walter T Federer Russell D Wolfinger, 2003.   PROC GLM PROC MIXED Codes Trend Analyses   Row-Column Designed Experiments,   Handbook Formulas Software Plant Geneticists     Breeders, Haworth Press. Paul N Hinz, (1987).   Nearest-Neighbor Analysis Practice,   Iowa State Journal Research, 62, 199--217.   https://lib.dr.iastate.edu/iowastatejournalofresearch/vol62/iss2/1","code":""},{"path":"/reference/federer.tobacco.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"","code":"if (FALSE) {  library(agridat)  data(federer.tobacco) dat <- federer.tobacco  # RCB analysis.  Treatment factor not signficant. dat <- transform(dat, dosef=factor(dose), rowf=factor(row),                  blockf=factor(block)) m1 <- lm(height ~ blockf + dosef, data=dat) anova(m1)  # RCB residuals show strong spatial trends libs(desplot) dat$resid <- resid(m1) desplot(dat, resid ~ row * block,         # aspect unknown         main=\"federer.tobacco\")   # Row-column analysis.  Treatment now significant m2 <- lm(height ~ rowf + blockf + dosef, data=dat) anova(m2)  }"},{"path":"/reference/fisher.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"Multi-environment trial 5 barley varieties, 6 locations, 2 years","code":""},{"path":"/reference/fisher.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"","code":"data(\"fisher.barley\")"},{"path":"/reference/fisher.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"data frame 60 observations following 4 variables. yield yield, bu/ac gen genotype/variety, 5 levels env environment/location, 2 levels year year, 1931/1932","code":""},{"path":"/reference/fisher.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"Trials 5 varieties barley conducted 6 stations   Minnesota years 1931-1932. subset Immer's barley data.  yield values   totals 3 reps (Immer gave average yield 3 reps).","code":""},{"path":"/reference/fisher.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"Ronald Fisher (1935).   Design Experiments.","code":""},{"path":"/reference/fisher.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"George Fernandez (1991).   Analysis Genotype x Environment Interaction Stability Estimates.   Hort Science, 26, 947-950. F. Yates & W. G. Cochran (1938).   Analysis Groups Experiments.   Journal Agricultural Science, 28, 556-580, table 1.   https://doi.org/10.1017/S0021859600050978 G. K. Shukla, 1972.   statistical aspects partitioning genotype-environmental   components variability.   Heredity, 29, 237-245. Table 1.   https://doi.org/10.1038/hdy.1972.87","code":""},{"path":"/reference/fisher.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"","code":"if (FALSE) {    library(agridat)   data(fisher.barley)   dat <- fisher.barley    libs(dplyr,lattice)   # Yates 1938 figure 1. Regression on env mean   # Sum years within loc   dat2 <- aggregate(yield ~ gen + env, data=dat, FUN=sum)   # Avg within env   emn <- aggregate(yield ~ env, data=dat2, FUN=mean)   dat2$envmn <- emn$yield[match(dat2$env, emn$env)]   xyplot(yield ~ envmn, dat2, group=gen, type=c('p','r'),          main=\"fisher.barley - stability regression\",          xlab=\"Environment total\", ylab=\"Variety mean\",          auto.key=list(columns=3))     # calculate stability according to the sum-of-squares approach used by   # Shukla (1972), eqn 11. match to Shukla, Table 4, M.S. column   # also matches fernandez, table 3, stabvar column   libs(dplyr)   dat2 <- dat   dat2 <- group_by(dat2, gen,env)   dat2 <- summarize(dat2, yield=sum(yield)) # means across years   dat2 <- group_by(dat2, env)   dat2 <- mutate(dat2, envmn=mean(yield)) # env means   dat2 <- group_by(dat2, gen)   dat2 <- mutate(dat2, genmn=mean(yield)) # gen means   dat2 <- ungroup(dat2)   dat2 <- mutate(dat2, grandmn=mean(yield)) # grand mean   # correction factor overall   dat2 <- mutate(dat2, cf = sum((yield - genmn - envmn + grandmn)^2))   t=5; s=6 # t genotypes, s environments   dat2 <- group_by(dat2, gen)   dat2 <- mutate(dat2, ss=sum((yield-genmn-envmn+grandmn)^2))   # divide by 6 to scale down to plot-level   dat2 <- mutate(dat2, sig2i = 1/((s-1)*(t-1)*(t-2)) * (t*(t-1)*ss-cf)/6)   dat2[!duplicated(dat2$gen),c('gen','sig2i')]       ##       <chr>     <dbl>   ## 1 Manchuria  25.87912   ## 2  Peatland  75.68001   ## 3  Svansota  19.59984   ## 4     Trebi 225.52866   ## 5    Velvet  22.73051    if(require(\"asreml\", quietly=TRUE)) {     # mixed model approach gives similar results (but not identical)     libs(asreml,lucid)      dat2 <- dat     dat2 <- dplyr::group_by(dat2, gen,env)     dat2 <- dplyr::summarize(dat2, yield=sum(yield)) # means across years     dat2 <- dplyr::arrange(dat2, gen)          # G-side     m1g <- asreml(yield ~ gen, data=dat2,                   random = ~ env + at(gen):units,                   family=asr_gaussian(dispersion=1.0))     m1g <- update(m1g)     summary(m1g)$varcomp[-1,1:2]/6     #                            component std.error     # at(gen, Manchuria):units  33.8145031  27.22721     # at(gen, Peatland):units   70.4489092  50.52680     # at(gen, Svansota):units   25.2728568  21.92919     # at(gen, Trebi):units     231.6981702 150.80464     # at(gen, Velvet):units     13.9325646  16.58571     # units!R                    0.1666667        NA          # R-side estimates = G-side estimate + 0.1666 (resid variance)     m1r <- asreml(yield ~ gen, data=dat2,                   random = ~ env,                   residual = ~ dsum( ~ units|gen))     m1r <- update(m1r)     summary(m1r)$varcomp[-1,1:2]/6     #                     component std.error     # gen_Manchuria!R  34.00058  27.24871     # gen_Peatland!R   70.65501  50.58925     # gen_Svansota!R   25.42022  21.88606     # gen_Trebi!R     231.85846 150.78756     # gen_Velvet!R     14.08405  16.55558   }    }"},{"path":"/reference/fisher.latin.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square experiment on mangolds — fisher.latin","title":"Latin square experiment on mangolds — fisher.latin","text":"Latin square experiment mangolds.  Used R. . Fisher.","code":""},{"path":"/reference/fisher.latin.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Latin square experiment on mangolds — fisher.latin","text":"","code":"data(\"fisher.latin\")"},{"path":"/reference/fisher.latin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square experiment on mangolds — fisher.latin","text":"data frame 25 observations following 4 variables. trt treatment factor, 5 levels yield yield row row col column","code":""},{"path":"/reference/fisher.latin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Latin square experiment on mangolds — fisher.latin","text":"Yields root weights.  Data originally collected Mercer   Hall part uniformity trial. data data columns 1-5, rows 16-20,   mercer.mangold.uniformity data package. Unsurprisingly, significant treatment differences.","code":""},{"path":"/reference/fisher.latin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square experiment on mangolds — fisher.latin","text":"Mercer, WB Hall, AD, 1911.   experimental error field trials   Journal Agricultural Science, 4, 107-132. Table 1.   http::/doi.org/10.1017/S002185960000160X R. . Fisher. Statistical Methods Research Workers.","code":""},{"path":"/reference/fisher.latin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square experiment on mangolds — fisher.latin","text":"","code":"library(agridat)  data(fisher.latin) dat <- fisher.latin  # Standard latin-square analysis m1 <- lm(yield ~ trt + factor(row) + factor(col), data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: yield #>             Df Sum Sq Mean Sq F value   Pr(>F)    #> trt          4  330.2   82.56  0.5647 0.692978    #> factor(row)  4 4240.2 1060.06  7.2511 0.003294 ** #> factor(col)  4  701.8  175.46  1.2002 0.360412    #> Residuals   12 1754.3  146.19                     #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1"},{"path":"/reference/forster.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"Uniformity trial wheat Australia.","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"","code":"data(\"forster.wheat.uniformity\")"},{"path":"/reference/forster.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"data frame 160 observations following 3 variables. row row ordinate col column ordinate yield yield, ounces per plot","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"experiment repeat classic experiment Mercer   Hall. Conducted State Research Farm, Werribee, Victoria, Australia. Planted 1926. Harvested 1927. acre land selected. plot   one double-sown row. plot 30 x 20 links. whole experiment 300 x 320 links. Near west edge, strip damaged cart tracks excluded. field marked quarters one quarter subdivided   harvested time. quarter cut 5 strips 8 plots. Field length: 16 plots * 20 links = 320 links (211 feet). Field width: 10 plots * 30 links = 300 links (197 feet). Note: clear strip \"yards wide\" omitted   yet dimensions whole area still 300 x 320 links. Since omitted strip 1/3 width plot, (agridat   authors) decided ignore omitted strip. electronic data manually typed source 2023-04-12.   Summary statistics electronic data differ slightly   summaries Forster, indicating possible typos rounding   printed yield values paper. Values checked hand   match paper.","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"Forster, H. C. (Howard Carlyle), - Vasey, . J. (1928).   Experimental error field trials Australia.   Proceedings Royal Society Victoria. New series, 40, 70--80.   Table 1.   https://www.biodiversitylibrary.org/page/54367272","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"None","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"","code":"if (FALSE) {   require(agridat)   data(forster.wheat.uniformity)   dat <- forster.wheat.uniformity      mean(dat$yield)   # 135.97 # Forster says 136.5   sd(dat$yield)   # 10.68  # Forster says 10.9      # Compare to Forster table 3.  Slight differences.   table( cut(dat$yield,              breaks = c(106,111,116,121,126,131,136,141,                         146,151,156,161,166)+.5) )   # Forster has 5 plots in the 157-161 bin, but we show 6.   # I filtered the data for this bin and verified our data   # matches the layout in the paper.   filter(dat, yield>156.5, yield<161.5)    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(16*20)/(10*30), # true aspect           main=\"forster.wheat.uniformity\") }"},{"path":"/reference/foulley.calving.html","id":null,"dir":"Reference","previous_headings":"","what":"Calving difficulty by calf sex and age of dam — foulley.calving","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"Calving difficulty calf sex age dam","code":""},{"path":"/reference/foulley.calving.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"","code":"data(\"foulley.calving\")"},{"path":"/reference/foulley.calving.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"data frame 54 observations following 4 variables. sex calf gender age dam age factor, 9 levels score score birthing difficulty, S1 < S2 < S3 count count births category","code":""},{"path":"/reference/foulley.calving.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"data calving difficulty scores purebred US Simmental   cows. raw data show greatest calving difficulty young   dams male calves.   Differences male/female calves decreased age dam. goodness fit can improved using scaling effect age   dam. Note: paper Foulley Gianola '21943' count   score 1, F, >8.  data uses '20943' marginal totals   data match marginal totals given paper. Used permission Jean-Louis Foulley.","code":""},{"path":"/reference/foulley.calving.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"JL Foulley, D Gianola (1996).   Statistical Analysis Ordered Categorical Data via Structured   Heteroskedastic Threshold Model.   Genet Sel Evol, 28, 249--273.   https://doi.org/10.1051/gse:19960304","code":""},{"path":"/reference/foulley.calving.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"","code":"if (FALSE) {  library(agridat) data(foulley.calving) dat <- foulley.calving  ## Plot d2 <- transform(dat,                 age=ordered(age, levels=c(\"0.0-2.0\",\"2.0-2.5\",\"2.5-3.0\",                                           \"3.0-3.5\",\"3.5-4.0\",                                           \"4.0-4.5\",\"4.5-5.0\",\"5.0-8.0\",\"8.0+\")),                 score=ordered(score, levels=c('S1','S2','S3'))) libs(reshape2) d2 <- acast(dat, sex+age~score, value.var='count') d2 <- prop.table(d2, margin=1) libs(lattice) thm <- simpleTheme(col=c('skyblue','gray','pink')) barchart(d2, par.settings=thm, main=\"foulley.calving\",          xlab=\"Frequency of calving difficulty\", ylab=\"Calf gender and dam age\",          auto.key=list(columns=3, text=c(\"Easy\",\"Assited\",\"Difficult\")))   ## Ordinal multinomial model  libs(ordinal) m2 <- clm(score ~ sex*age, data=dat, weights=count, link='probit') summary(m2)  ##   Coefficients: ##                  Estimate Std. Error z value Pr(>|z|)     ## sexM             0.500605   0.015178  32.982  < 2e-16 *** ## age2.0-2.5      -0.237643   0.013846 -17.163  < 2e-16 *** ## age2.5-3.0      -0.681648   0.018894 -36.077  < 2e-16 *** ## age3.0-3.5      -0.957138   0.018322 -52.241  < 2e-16 *** ## age3.5-4.0      -1.082520   0.024356 -44.446  < 2e-16 *** ## age4.0-4.5      -1.146834   0.022496 -50.981  < 2e-16 *** ## age4.5-5.0      -1.175312   0.028257 -41.594  < 2e-16 *** ## age5.0-8.0      -1.280587   0.016948 -75.559  < 2e-16 *** ## age8.0+         -1.323749   0.024079 -54.974  < 2e-16 *** ## sexM:age2.0-2.5  0.003035   0.019333   0.157  0.87527     ## sexM:age2.5-3.0 -0.076677   0.026106  -2.937  0.00331 **  ## sexM:age3.0-3.5 -0.080657   0.024635  -3.274  0.00106 **  ## sexM:age3.5-4.0 -0.135774   0.032927  -4.124 3.73e-05 *** ## sexM:age4.0-4.5 -0.124303   0.029819  -4.169 3.07e-05 *** ## sexM:age4.5-5.0 -0.198897   0.038309  -5.192 2.08e-07 *** ## sexM:age5.0-8.0 -0.135524   0.022804  -5.943 2.80e-09 *** ## sexM:age8.0+    -0.131033   0.031852  -4.114 3.89e-05 *** ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Threshold coefficients: ##       Estimate Std. Error z value ## S1|S2  0.82504    0.01083   76.15 ## S2|S3  1.52017    0.01138  133.62  ## Note 1.52017 - 0.82504 = 0.695 matches Foulley's '2-3' threshold estimate  predict(m2) # probability of each category    }"},{"path":"/reference/fox.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"Wheat yields 22 varieties 14 sites Australia","code":""},{"path":"/reference/fox.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"","code":"data(\"fox.wheat\")"},{"path":"/reference/fox.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"data frame 308 observations following 4 variables. gen genotype/variety factor, 22 levels site site factor, 14 levels yield yield, tonnes/ha state state Australia","code":""},{"path":"/reference/fox.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"1975 Interstate Wheat Variety trial Australia used RCB design   4 blocks, 22 varieties 14 sites.  Wagga represented twice,   trials sown May June. 22 varieties highly selected represent considerable   genetic diversity four different groups.   () University Sydney: Timson, Songlen, Gamenya.   (ii) widely grown Mallee soils: Heron Halberd.   (iii) late maturing varieties Victoria: Pinnacle, KL-21, JL-157.   (iv) Mexican parentage: WW-15  Oxley.","code":""},{"path":"/reference/fox.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"Fox, P.N. Rathjen, .J. (1981).   Relationships sites used interstate wheat variety trials.   Australian Journal Agricultural Research, 32, 691-702. Electronic version supplied Jonathan Godfrey.","code":""},{"path":"/reference/fox.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"","code":"if (FALSE) {  library(agridat)  data(fox.wheat) dat <- fox.wheat  # Means of varieties.  Slight differences from Fox and Rathjen suggest # they had more decimals of precision than shown. tapply(dat$yield, dat$gen, mean)  # Calculate genotype means, merge into the data genm <- tapply(dat$yield, dat$gen, mean) dat$genm <- genm[match(dat$gen, names(genm))]  # Calculate slopes for each site.  Matches Fox, Table 2, Col A. m1 <- lm(yield~site+site:genm, data=dat) sort(round(coef(m1)[15:28],2), dec=TRUE)  # Figure 1 of Fox libs(lattice) xyplot(yield~genm|state, data=dat, type=c('p','r'), group=site,        auto.key=list(columns=4),        main=\"fox.wheat\", xlab=\"Variety mean across all sites\",        ylab=\"Variety yield at each site within states\")  }"},{"path":"/reference/garber.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"Uniformity trials oat hay wheat grain, West Virginia   Agricultural Experiment Station, 1923-1924, land.","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"data frame 270 observations following 4 variables. row row col column plot plot number year year crop crop yield yield (pounds bu/ac)","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"experiments conducted West Virginia Agricultural   Experiment Station Maggie, West Virginia. Note, Garber et al (1926) Garber et al (1931) describe uniformity   trials field, experimental plot numbers   two papers different, indicating different parts field. data 1923 1924 given Garber (1926). data 1927, 1928, 1929 given Garber (1931). data given source papers relative deviations   mean, converted absolute yields   package. First paper: Garber (1926) plot 68 feet x 21 feet. discarding 3.5 foot border   sides, harvested area 61 feet x 14 feet. plots   laid double series 14-foot roadway   plots. example, columns 1 & 2 side--side, 14 foot   road, columns 3 & 4, 14 foot road, columns 5 & 6. Note: orientation plots (68x21) educated guess.   orientation 21x68, field extremely narrow   long. Field width: 6 plots * 68 feet + 14 ft/roadway * 2 = 436 feet Field length: 45 plots * 21 feet/plot = 945 feet Garber said: \"Plots 211 214, 261 264, [note, rows   11-14, columns 5-6] inclusive, eliminated study   fact years ago straw stack stood   vicinity...undoubtedly accounts relatively high yields   plots 261 264, inclusive.\" 1923 oat hay, yield pounds per acre data oat hay given Table 5 mean-subtracted   yields pounds per acre plot. oat   yield row 22, column 5 given +59.7.  obviously   incorrect, since negative yields end '.7' positive   yields ended '.3'.  used -59.7 centered yield value   added mean 1883.7 (p. 259) centered yields obtain   absolute yields pounds per acre. 1924 wheat, yield bushels per acre data wheat given bushels per acre, expressed   deviations mean yield (15.6 bu).   added mean plot data. Second paper: Garber (1926) 1927 corn, 1928 oats, 1929 wheat field 10 plots wide, 84 plots tall. Field width: 10 plots * 68 feet + 4 roads * 14 feet = 736 feet. Field length: 84 plots * 21 feet + 3 roads * 14 feet = 1806 feet.","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"Garber, R.J. Mcllvaine, T.C. Hoover, M.M. (1926).   study soil heterogeneity experiment plots.   Jour Agr Res, 33, 255-268. Tables 3, 5.   https://naldc.nal.usda.gov/download/IND43967148/PDF Garber, R. J. T. C. McIlvaine M. M. Hoover (1931).   Method Laying Experimental Plats.   Journal American Society Agronomy, 23, 286-298,   https://archive.org/details/.ernet.dli.2015.229753/page/n299","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"None","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(garber.multi.uniformity)   dat <- garber.multi.uniformity    ## aggregate(yield~year, data=dat, FUN=mean)   ##   year      yield   ## 1 1923 1883.30741   ## 2 1924   15.58296   ## 3 1927   76.28965   ## 4 1928   32.81415   ## 5 1929   19.44650    libs(desplot)   desplot(dat, yield ~ col*row, subset=year==1923,           flip=TRUE, tick=TRUE, aspect=945/436, # true aspect           main=\"garber.multi.uniformity 1923 oats\")   desplot(dat, yield ~ col*row, subset=year==1924,           flip=TRUE, tick=TRUE, aspect=945/436, # true aspect           main=\"garber.multi.uniformity 1924 wheat\")   desplot(dat, yield ~ col*row|year, subset=year >= 1927,           flip=TRUE, tick=TRUE, aspect=1806/736, # true aspect           main=\"garber.multi.uniformity 1927-1929\")    # Correlation of same plots in 1923 vs 1924. Garber has 0.37   # cor(subset(dat, year==1923)$yield,   #     subset(dat, year==1924)$yield ) # .37   # Garber 1931 table 2 has .58, .20   # cor(subset(dat, year==1927)$yield,   #     subset(dat, year==1928)$yield, use=\"pair\" ) # .58   # cor(subset(dat, year==1927)$yield,   #     subset(dat, year==1929)$yield, use=\"pair\" ) # .19  }"},{"path":"/reference/gartner.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield monitor data from a corn field in Minnesota — gartner.corn","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"Yield monitor data corn field Minnesota","code":""},{"path":"/reference/gartner.corn.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"","code":"data(\"gartner.corn\")"},{"path":"/reference/gartner.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"data frame 4949 observations following 8 variables. long longitude lat latitude mass grain mass flow per second, pounds time GPS time, seconds seconds seconds elapsed datum dist distance traveled datum, inches moist grain moisture, percent elev elevation, feet","code":""},{"path":"/reference/gartner.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"data collected 5 Nov 2011 corn field south Mankato,   Minnesota, using combine-mounted yield monitor.   https://www.google.com/maps/place/43.9237575,-93.9750632 harvested swath 12 rows wide = 360 inches. Timestamp 0 = 5 Nov 2011, 12:38:03 Central Time.   Timestamp 16359 = 4.54 hours later. Yield calculated total dry weight (corrected 15.5 percent   moisture), divided 56 pounds (get bushels), divided   harvested area: drygrain = [massflow * seconds * (100-moisture) / (100-15.5)] / 56   harvested area = (distance * swath width) / 6272640   yield = drygrain / area","code":""},{"path":"/reference/gartner.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"University Minnesota Precision Agriculture Center.   Retrieved 27 Aug 2015 https://web.archive.org/web/20100717003256/https://www.soils.umn.edu/academics/classes/soil4111/files/yield_a.xls Used via license: Creative Commons -SA 3.0.","code":""},{"path":"/reference/gartner.corn.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"Suman Rakshit, Adrian Baddeley, Katia Stefanova, Karyn Reeves, Kefei   Chen, Zhanglong Cao, Fiona Evans, Mark Gibberd (2020).   Novel approach analysis spatially-varying treatment effects   -farm experiments.   Field Crops Research, 255, 15 September 2020, 107783.   https://doi.org/10.1016/j.fcr.2020.107783","code":""},{"path":"/reference/gartner.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"","code":"if (FALSE) {    library(agridat)   data(gartner.corn)   dat <- gartner.corn    # Calculate yield from mass & moisture   dat <- transform(dat,   yield=(mass*seconds*(100-moist)/(100-15.5)/56)/(dist*360/6272640))    # Delete low yield outliers   dat <- subset(dat, yield >50)    # Group yield into 20 bins for red-gray-blue colors   medy <- median(dat$yield)   ncols <- 20   wwidth <- 150   brks <- seq(from = -wwidth/2, to=wwidth/2, length=ncols-1)   brks <- c(-250, brks, 250) # 250 is safe..we cleaned data outside ?(50,450)?   yldbrks <- brks + medy   dat <- transform(dat, yldbin = as.numeric(cut(yield, breaks= yldbrks)))   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   dat$yieldcolor = redblue(ncols)[dat$yldbin]    # Polygons for soil map units   # Go to: https://websoilsurvey.nrcs.usda.gov/app/WebSoilSurvey.aspx   # Click: Lat and Long. 43.924, -93.975   # Click the little AOI rectangle icon.  Drag around the field   # In the AOI Properties, enter the Name: Gartner   # Click the tab Soil Map to see map unit symbols, names   # Click: Download Soils Data.  Click: Create Download Link.   # Download the zip file and find the soilmu_a_aoi files.    # Read shape files   libs(sf)   fname <- system.file(package=\"agridat\", \"files\", \"gartner.corn.shp\")   shp <- sf::st_read( fname )    # Annotate soil map units. Coordinates chosen by hand.   mulabs = data.frame(     name=c(\"110\",\"319\",\"319\",\"230\",\"105C\",\"110\",\"211\",\"110\",\"211\",\"230\",\"105C\"),     x = c(-93.97641, -93.97787, -93.97550, -93.97693, -93.97654, -93.97480,           -93.97375, -93.978284, -93.977617, -93.976715, -93.975929),     y = c(43.92185, 43.92290, 43.92358, 43.92445, 43.92532, 43.92553,           43.92568, 43.922163, 43.926427, 43.926993, 43.926631) )   mulabs = st_as_sf( mulabs, coords=c(\"x\",\"y\"), crs=4326)   mulabs = st_transform(mulabs, 2264)    # Trim top and bottom ends of the field   dat <- subset(dat, lat < 43.925850 & lat > 43.921178)   # Colored points for yield   dat <- st_as_sf(dat, coords=c(\"long\",\"lat\"), crs=4326)    libs(ggplot2)      ggplot() +     geom_sf(data=dat, aes(col=yieldcolor) ) +     scale_color_identity() +     geom_sf_label(data=mulabs, aes(label=name), cex=2) +     geom_sf(data=shp[\"MUSYM\"], fill=\"transparent\") +     ggtitle(\"gartner.corn\") +     theme_classic()      if(0){     # Draw a 3D surface.  Clearly shows the low drainage area     # Re-run the steps above up, stop before the \"Colored points\" line.     libs(rgl)     dat <- transform(dat, x=long-min(long), y=lat-min(lat), z=elev-min(elev))     clear3d()     points3d(dat$x, dat$y, dat$z/50000,              col=redblue(ncols)[dat$yldbin])     axes3d()     title3d(xlab='x',ylab='y',zlab='elev')     close3d()   }  }"},{"path":"/reference/gathmann.bt.html","id":null,"dir":"Reference","previous_headings":"","what":"Impact of Bt corn on non-target species — gathmann.bt","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"Impact Bt corn non-target species","code":""},{"path":"/reference/gathmann.bt.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"data frame 16 observations following 3 variables. gen genotype/maize, Bt ISO thysan thysan abundance aranei aranei abundance","code":""},{"path":"/reference/gathmann.bt.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"experiment involved comparing Bt maize near-isogenic   control variety. Species abundances measured Thysanoptera (thrips)   Araneida (spiders) 8 different plots. response probably mean across repeated measurements. Used permission Achim Gathmann.","code":""},{"path":"/reference/gathmann.bt.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"L. . Hothorn, 2005.   Evaluation Bt-Maize Field Trials Proof Safety.   https://www.seedtest.org/upload/cms/user/presentation7Hothorn.pdf","code":""},{"path":"/reference/gathmann.bt.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"","code":"if (FALSE) {  library(agridat) data(gathmann.bt) dat <- gathmann.bt   # EDA suggests Bt vs ISO is significant for thysan, not for aranei libs(lattice) libs(reshape2) d2 <- melt(dat, id.var='gen') bwplot(value ~ gen|variable, d2,        main=\"gathmann.bt\", ylab=\"Insect abundance\",        panel=function(x,y,...){          panel.xyplot(jitter(as.numeric(x)),y,...)          panel.bwplot(x,y,...)        },        scales=list(relation=\"free\"))   if(0){    # ----- Parametric CI.  Thysan significant, aranei not significant.   libs(equivalence)    th0 <- with(dat, tost(thysan[1:8], thysan[9:16], alpha=.05, paired=FALSE))   lapply(th0[c(\"estimate\",\"tost.interval\")], round, 2)   # 14.28-8.72=5.56, (2.51, 8.59) # match Gathmann p. 11    ar0 <- with(dat, tost(aranei[1:8], aranei[9:16], alpha=.05, epsilon=.4))   lapply(ar0[c(\"estimate\",\"tost.interval\")], round, 2)   # .57-.47=.10, (-0.19, 0.40) # match Gathmann p. 11    # ----- Non-parametric exact CI.  Same result.   libs(coin)    th1 <- wilcox_test(thysan ~ gen, data=dat, conf.int=TRUE, conf.level=0.90)   lapply(confint(th1), round, 2)   # 6.36, (2.8, 9.2) # Match Gathmann p. 11    ar1 <- wilcox_test(aranei ~ gen, data=dat, conf.int=TRUE, conf.level=0.90)   lapply(confint(ar1), round, 2)   # .05 (-.2, .4)         # ----- Log-transformed exact CI. Same result.   th2 <- wilcox_test(log(thysan) ~ gen, data=dat, alternative=c(\"two.sided\"),                      conf.int=TRUE, conf.level=0.9)   lapply(confint(th2), function(x) round(exp(x),2))   # 1.66, (1.38, 2.31) # Match Gathmann p 11      # ----- Log-transform doesn't work on aranei, but asinh(x/2) does   ar2 <- wilcox_test(asinh(aranei/2) ~ gen, data=dat,                      alternative=c(\"two.sided\"),                      conf.int=TRUE, conf.level=0.9)   lapply(confint(ar2), function(x) round(sinh(x)*2,1))  }  }"},{"path":"/reference/gauch.soy.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"New York soybean yields, 1977 1988, 7 genotypes, 55   environments (9 loc, 12 years), 2-3 reps.","code":""},{"path":"/reference/gauch.soy.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"data frame 1454 observations following 4 variables. yield yield, kg/ha rep repeated measurement gen genotype, 7 levels env environment, 55 levels year year, 77-88 loc location, 10 levels","code":""},{"path":"/reference/gauch.soy.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"Soybean yields 13 percent moisture 7 genotypes 55   environments 4 replicates.  environments 2 3   replicates.  experiment RCB design, plots   missing many soybean varieties experiment.   replications appear random order _NOT_ define blocks.   Environment names combination first letter   location name last two digits year.  location codes   :   =Aurora, C=Chazy, D=Riverhead, E=Etna, G=Geneseo,   =Ithica, L=Lockport, N=Canton, R=Romulus, V=Valatie.   Plots 7.6 m long, four rows wide (middle two rows   harvested). data widely used (various subsets) promote   benefits AMMI (Additive Main Effects Multiplicative Interactions)   analyses. gen x env means Table 1 (Zobel et al 1998) least-squares   means (personal communication). Retrieved Sep 2011   https://www.microcomputerpower.com/matmodel/matmodelmatmodel_sample_.html Used permission Hugh Gauch.","code":""},{"path":"/reference/gauch.soy.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"Zobel, RW Wright, MJ Gauch Jr, HG. 1998.   Statistical analysis yield trial.   Agronomy journal, 80, 388-393.   https://doi.org/10.2134/agronj1988.00021962008000030002x","code":""},{"path":"/reference/gauch.soy.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"None","code":""},{"path":"/reference/gauch.soy.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"","code":"if (FALSE) {      library(agridat)   data(gauch.soy)   dat <- gauch.soy    ## dat <- transform(dat,   ##                  year = substring(env, 2),   ##                  loc = substring(env, 1, 1))    # AMMI biplot   libs(agricolae)   # Figure 1 of Zobel et al 1988, means vs PC1 score   dat2 <- droplevels(subset(dat, is.element(env, c(\"A77\",\"C77\",\"V77\",        \"V78\",\"A79\",\"C79\",\"G79\",\"R79\",\"V79\",\"A80\",\"C80\",\"G80\",\"L80\",\"D80\",        \"R80\",\"V80\",\"A81\",\"C81\",\"G81\",\"L81\",\"D81\",\"R81\",\"V81\",\"A82\",\"L82\",        \"G82\",\"V82\",\"A83\",\"I83\",\"G83\",\"A84\",\"N84\",\"C84\",\"I84\",\"G84\"))))    m2 <- with(dat2, AMMI(env, gen, rep, yield))   bip <- m2$biplot   with(bip, plot(yield, PC1, type='n', main=\"gauch.soy -- AMMI biplot\"))   with(bip, text(yield, PC1, rownames(bip),                  col=ifelse(bip$type==\"GEN\", \"darkgreen\", \"blue\"),                  cex=ifelse(bip$type==\"GEN\", 1.5, .75))) }"},{"path":"/reference/george.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-location/year breeding trial in California — george.wheat","title":"Multi-location/year breeding trial in California — george.wheat","text":"Multi-location/year breeding trial California","code":""},{"path":"/reference/george.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-location/year breeding trial in California — george.wheat","text":"","code":"data(\"george.wheat\")"},{"path":"/reference/george.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-location/year breeding trial in California — george.wheat","text":"data frame 13996 observations following 5 variables. gen genotype number year year loc location block block yield yield per plot","code":""},{"path":"/reference/george.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-location/year breeding trial in California — george.wheat","text":"nice example data breeding trial,   check genotypes kepts whole experiment,   genotypes enter leave breeding program.  data highly   unbalanced respect genotypes--environments. Results late-stage small-trials 211 genotypes wheat   California, conducted 9 locations years 2004-2018. trial RCB 4 blocks. authors used data look GGE biplots across years   concluded repeatable genotype--location patterns weak,   therefore California cereal production region large,   unstable, mega-environment. Data downloaded 2019-10-29 Dryad,   https://doi.org/10.5061/dryad.bf8rt6b.    Data public domain.","code":""},{"path":"/reference/george.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-location/year breeding trial in California — george.wheat","text":"Nicholas George Mark Lundy (2019).   Quantifying Genotype x Environment Effects Long-Term Common Wheat Yield Trials Agroecologically Diverse Production Region.   Crop Science, 59, 1960-1972.   https://doi.org/10.2135/cropsci2019.01.0010","code":""},{"path":"/reference/george.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-location/year breeding trial in California — george.wheat","text":"None","code":""},{"path":"/reference/george.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-location/year breeding trial in California — george.wheat","text":"","code":"if (FALSE) {   library(agridat)   libs(lattice, reshape2)   data(george.wheat)   dat <- george.wheat      dat$env <- paste0(dat$year, \".\", dat$loc)   # average reps, cast to matrix   mat <- reshape2::acast(dat, gen ~ env, value.var=\"yield\", fun=mean, na.rm=TRUE)   lattice::levelplot(mat, aspect=\"m\",                       main=\"george.wheat\", xlab=\"genotype\", ylab=\"environment\",                      scales=list(x=list(cex=.3,rot=90),y=list(cex=.5)))  }"},{"path":"/reference/giles.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Straw length and ear emergence for wheat genotypes. — giles.wheat","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"Straw length ear emergence wheat genotypes.  Data   unbalanced respect experiment year genotype.","code":""},{"path":"/reference/giles.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"","code":"data(\"giles.wheat\")"},{"path":"/reference/giles.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"data frame 247 observations following 4 variables. gen genotype. Note, numeric! env environment straw straw length emergence ear emergence, Julian date","code":""},{"path":"/reference/giles.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"Highly unbalanced data straw length ear emergence date   wheat genotypes. 'genotype' column called 'Accession number' original data.   genotypes chosen represent range variation   trait. Julian date found preferable methods (  days sowing). Piepho (2003) fit bilinear model straw emergence data.    similar Finlay-Wilkinson regression.","code":""},{"path":"/reference/giles.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"R. Giles (1990).   Utilization unreplicated observations agronomic characters wheat germplasm collection.   : Wheat Genetic Resources. Meeting Diverse Needs.   Wiley, Chichester, U.K., pp.113-130.","code":""},{"path":"/reference/giles.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"Piepho, HP (2003).   Model-based mean adjustment quantitative germplasm evaluation data.   Genetic Resources Crop Evolution, 50, 281-290.   https://doi.org/10.1023/:1023503900759","code":""},{"path":"/reference/giles.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"","code":"if (FALSE) {  library(agridat) data(giles.wheat) dat <- giles.wheat dat <- transform(dat, gen=factor(gen)) dat_straw <- droplevels( subset(dat, !is.na(straw)) ) dat_emerg <- droplevels( subset(dat, !is.na(emergence)) )  # Traits are not related # with(dat, plot(straw~emergence))  # Show unbalancedness of data libs(lattice, reshape2) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(acast(dat_straw, env ~ gen, value.var='straw'),           col.regions=redblue,           scales=list(x=list(rot=90)),           xlab=\"year\", ylab=\"genotype\",           main=\"giles.wheat - straw length\")    # ----- Analysis of straw length -----  libs(emmeans)  # Mean across years. Matches Piepho Table 7 'Simple' m1 = lm(straw ~ gen, data=dat_straw) emmeans(m1, 'gen')  # Simple two-way model.  NOT the bi-additive model of Piepho. m2 = lm(straw ~ gen + env, data=dat_straw) emmeans(m2, 'gen')  # Bi-additive model. Matches Piepho Table 6, rows (c) libs(gnm) m3 <- gnm(straw ~ env + Mult(gen,env), data=dat_straw) cbind(adjusted=round(fitted(m3),0), dat_straw)   # ----- Analysis of Ear emergence -----  # Simple two-way model.  m4 = lm(emergence ~ 1 + gen + env, data=dat_emerg) emmeans(m4, c('gen','env')) # Matches Piepho Table 9. rpws (c) emmeans(m4, 'gen') # Match Piepho table 10, Least Squares column  }"},{"path":"/reference/gilmour.serpentine.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"RCB experiment wheat South Australia, strong spatial   variation serpentine row/column effects.","code":""},{"path":"/reference/gilmour.serpentine.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"data frame 330 observations following 5 variables. col column row row rep replicate factor, 3 levels gen wheat variety, 108 levels yield yield","code":""},{"path":"/reference/gilmour.serpentine.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"randomized complete block experiment.  108 varieties 3   reps.  Plots 6 meters long, 0.75 meters wide, trimmed 4.2   meters lengths harvest. Trimming done spraying wheat   herbicide.  sprayer travelled serpentine pattern   columns.  trial sown serpentine manner   planter seeds three rows time (Left, Middle, Right). Field width 15 columns * 6 m = 90 m Field length 22 plots * .75 m = 16.5 m Used permission Arthur Gilmour, turn permission   Gil Hollamby.","code":""},{"path":"/reference/gilmour.serpentine.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"Arthur R Gilmour Brian R Cullis Arunas P Verbyla, 1997.   Accounting natural extraneous variation analysis   field experiments.   Journal Agric Biol Env Statistics, 2, 269-293.","code":""},{"path":"/reference/gilmour.serpentine.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"N. W. Galwey. 2014.   Introduction Mixed Modelling: Beyond Regression Analysis   Variance.   Table 10.9","code":""},{"path":"/reference/gilmour.serpentine.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"","code":"if (FALSE) {    library(agridat)   data(gilmour.serpentine)   dat <- gilmour.serpentine    libs(desplot)   desplot(dat, yield~ col*row,           num=gen, show.key=FALSE, out1=rep,           aspect = 16.5/90, # true aspect           main=\"gilmour.serpentine\")     # Extreme field trend.  Blocking insufficient--needs a spline/smoother   # xyplot(yield~col, data=dat, main=\"gilmour.serpentine\")    if(require(\"asreml\", quietly=TRUE)) {        libs(asreml,lucid)          dat <- transform(dat, rowf=factor(row), colf=factor(10*(col-8)))     dat <- dat[order(dat$rowf, dat$colf), ] # Sort order needed by asreml          # RCB     m0 <- asreml(yield ~ gen, data=dat, random=~rep)          # Add AR1 x AR1     m1 <- asreml(yield ~ gen, data=dat,                  resid = ~ar1(rowf):ar1(colf))          # Add spline     m2 <- asreml(yield ~ gen + col, data=dat,                  random= ~ spl(col) + colf,                  resid = ~ar1(rowf):ar1(colf))        # Figure 4 shows serpentine spraying     p2 <- predict(m2, data=dat, classify=\"colf\")$pvals     plot(p2$predicted, type='b', xlab=\"column number\", ylab=\"BLUP\")        # Define column code (due to serpentine spraying)     # Rhelp doesn't like double-percent modulus symbol, so compute by hand     dat <- transform(dat, colcode = factor(dat$col-floor((dat$col-1)/4)*4 -1))          m3 <- asreml(yield ~ gen + lin(colf) + colcode, data=dat,                  random= ~ colf + rowf + spl(colf),                  resid = ~ar1(rowf):ar1(colf))        # Figure 6 shows serpentine row effects     p3 <- predict(m3, data=dat, classify=\"rowf\")$pvals     plot(p3$predicted, type='l', xlab=\"row number\", ylab=\"BLUP\")     text(1:22, p3$predicted, c('L','L','M','R','R','M','L','L',                                'M','R','R','M','L','L','M','R','R','M','L','L','M','R'))          # Define row code (due to serpentine planting). 1=middle, 2=left/right     dat <- transform(dat, rowcode = factor(row))     levels(dat$rowcode) <- c('2','2','1','2','2','1','2','2','1',                              '2','2','1','2','2','1','2','2','1','2','2','1','2')          m6 <- asreml(yield ~ gen + lin(colf) + colcode +rowcode, data=dat,                  random= ~ colf + rowf + spl(col),                  resid = ~ar1(rowf):ar1(colf))     plot(varioGram(m6), xlim=c(0:17), ylim=c(0,11), zlim=c(0,4000),          main=\"gilmour.serpentine\")   }    }"},{"path":"/reference/gilmour.slatehall.html","id":null,"dir":"Reference","previous_headings":"","what":"Slate Hall Farm 1978 — gilmour.slatehall","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"Yields trial Slate Hall Farm 1978.","code":""},{"path":"/reference/gilmour.slatehall.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"data frame 150 observations following 5 variables. row row col column yield yield (grams/plot) gen genotype factor, 25 levels rep rep factor, 6 levels","code":""},{"path":"/reference/gilmour.slatehall.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"trial spring wheat Slate Hall Farm 1978.    experiment balanced lattice 25 varieties 6 replicates.   'rep' labels arbitrary (rep labels appeared source   data).     row within rep incomplete block.   plot size 1.5 meters 4 meters. Field width: 10 plots x 4 m = 40 m Field length: 15 plots x 1.5 meters = 22.5 m","code":""},{"path":"/reference/gilmour.slatehall.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"Arthur R Gilmour Brian R Cullis Arunas P Verbyla (1997).   Accounting natural extraneous variation analysis   field experiments.   Journal Agricultural, Biological, Environmental     Statistics, 2, 269-293.   https://doi.org/10.2307/1400446","code":""},{"path":"/reference/gilmour.slatehall.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"None.","code":""},{"path":"/reference/gilmour.slatehall.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"","code":"if (FALSE) {    library(agridat)   data(gilmour.slatehall)   dat <- gilmour.slatehall    libs(desplot)   desplot(dat, yield ~ col * row,           aspect=22.5/40, num=gen, out1=rep, cex=1,           main=\"gilmour.slatehall\")     if(require(\"asreml\", quietly=TRUE)) {      libs(asreml,lucid)      # Model 4 of Gilmour et al 1997     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf), ]     m4 <- asreml(yield ~ gen + lin(row), data=dat,                  random = ~ dev(row) + dev(col),                  resid = ~ ar1(xf):ar1(yf))     # coef(m4)$fixed[1] # linear row     # [1] 31.72252 # (sign switch due to row ordering)          lucid::vc(m4)     ##       effect component std.error z.ratio bound      ##     dev(col)  2519      1959         1.3     P   0     ##     dev(row) 20290     10260         2       P   0     ##     xf:yf(R) 23950      4616         5.2     P   0     ## xf:yf!xf!cor     0.439     0.113     3.9     U   0     ## xf:yf!yf!cor     0.125     0.117     1.1     U   0          plot(varioGram(m4), main=\"gilmour.slatehall\")   }    }"},{"path":"/reference/gomez.fractionalfactorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"Fractional factorial rice, 1/2 2^6 = 2x2x2x2x2x2.   Two reps 2 blocks rep.","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"data frame 64 observations following 6 variables. yield grain yield tons/ha rep replicate, 2 levels block block within rep, 2 levels trt treatment, levels (1) abcdef col column position field row row position field treatment, 2 levels b b treatment, 2 levels c c treatment, 2 levels d d treatment, 2 levels e e treatment, 2 levels f f treatment, 2 levels","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"Grain yield 2^6 fractional factorial experiment blocks 16   plots , two replications. Gomez inconsistencies. One example: Page 171: treatment (1) rep 1, block 2 rep 2, block 1. Page 172: treatment (1) Rep 1, block 1 rep 2, block 1. data uses layout shown page 171. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 171-172.","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"","code":"if (FALSE) {  library(agridat) data(gomez.fractionalfactorial) dat <- gomez.fractionalfactorial  # trt abcdef has the highest yield # Gomez, Figure 4.8 libs(desplot) desplot(dat, yield~col*row,         # aspect unknown         text=trt, shorten=\"none\", show.key=FALSE, cex=1,         main=\"gomez.fractionalfactorial - treatment & yield\")     # Ensure factors   dat <- transform(dat,                    a=factor(a), b=factor(b), c=factor(c),                    d=factor(d), e=factor(e), f=factor(f) )    # Gomez table 4.24, trt SS totalled together. # Why didn't Gomez nest block within rep? m0 <- lm(yield ~ rep * block + trt, dat) anova(m0)  # Gomez table 4.24, trt SS split apart m1 <- lm(yield ~ rep * block + (a+b+c+d+e+f)^3, dat) anova(m1)  libs(FrF2) aliases(m1) MEPlot(m1, select=3:8,        main=\"gomez.fractionalfactorial - main effects plot\")  }"},{"path":"/reference/gomez.groupsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Group balanced split-plot design in rice — gomez.groupsplit","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"Group balanced split-plot design rice","code":""},{"path":"/reference/gomez.groupsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"data frame 270 observations following 7 variables. col column row row rep replicate factor, 3 levels fert fertilizer factor, 2 levels gen genotype factor, 45 levels group grouping (genotype) factor, 3 levels yield yield rice","code":""},{"path":"/reference/gomez.groupsplit.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"Genotype group S1 less 105 days growth duration, S2   105-115 days growth duration, S3 115 days. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.groupsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 120.","code":""},{"path":"/reference/gomez.groupsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"","code":"library(agridat) data(gomez.groupsplit) dat <- gomez.groupsplit  # Gomez figure 3.10.  Obvious fert and group effects libs(desplot) desplot(dat, group ~ col*row,         out1=rep, col=fert, text=gen, # aspect unknown         main=\"gomez.groupsplit\")   # Gomez table 3.19 (not partitioned by group) m1 <- aov(yield ~ fert*group + gen:group + fert:gen:group +             Error(rep/fert/group), data=dat) summary(m1) #>  #> Error: rep #>           Df Sum Sq Mean Sq F value Pr(>F) #> Residuals  2  4.917   2.458                #>  #> Error: rep:fert #>           Df Sum Sq Mean Sq F value Pr(>F)   #> fert       1  96.05   96.05    68.7 0.0142 * #> Residuals  2   2.80    1.40                  #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: rep:fert:group #>            Df Sum Sq Mean Sq F value Pr(>F)   #> group       2  4.259  2.1294   6.674 0.0197 * #> fert:group  2  0.628  0.3138   0.984 0.4150   #> Residuals   8  2.553  0.3191                  #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>                 Df Sum Sq Mean Sq F value   Pr(>F)     #> group:gen       42 20.494  0.4880   4.461 2.08e-12 *** #> fert:group:gen  42  4.093  0.0975   0.891    0.662     #> Residuals      168 18.378  0.1094                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1"},{"path":"/reference/gomez.heterogeneity.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"RCB experiment rice, heterogeneity regressions","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"","code":"data(\"gomez.heterogeneity\")"},{"path":"/reference/gomez.heterogeneity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"gen genotype yield yield kg/ha tillers tillers /hill","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"experiment 3 genotypes examine relationship yield   number tillers. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 377.","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"None.","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"","code":"if (FALSE) {  library(agridat) data(gomez.heterogeneity) dat <- gomez.heterogeneity    libs(lattice)   xyplot(yield ~ tillers, dat, groups=gen,          type=c(\"p\",\"r\"),          main=\"gomez.heterogeneity\") }"},{"path":"/reference/gomez.heteroskedastic.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"RCB experiment rice, heteroskedastic varieties","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"","code":"data(\"gomez.heteroskedastic\")"},{"path":"/reference/gomez.heteroskedastic.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"data frame 105 observations following 4 variables. gen genotype group group genotypes rep replicate yield yield","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"RCB design three reps.  Genotypes 1-15 hybrids, 16-32   parents, 33-35 checks. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 310.","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"None.","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"","code":"library(agridat) data(gomez.heteroskedastic) dat <- gomez.heteroskedastic  # Fix the outlier as reported by Gomez p. 311 dat[dat$gen==\"G17\" & dat$rep==\"R2\",\"yield\"] <- 7.58  libs(lattice) bwplot(gen ~ yield, dat, group=as.numeric(dat$group),        ylab=\"genotype\", main=\"gomez.heterogeneous\")   # Match Gomez table 7.28 m1 <- lm(yield ~ rep + gen, data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: yield #>           Df Sum Sq Mean Sq F value    Pr(>F)     #> rep        2  3.306 1.65304  5.6164  0.005528 **  #> gen       34 40.020 1.17705  3.9992 5.806e-07 *** #> Residuals 68 20.014 0.29432                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: yield ##           Df Sum Sq Mean Sq F value    Pr(>F) ## rep        2  3.306 1.65304  5.6164  0.005528 ** ## gen       34 40.020 1.17705  3.9992 5.806e-07 *** ## Residuals 68 20.014 0.29432"},{"path":"/reference/gomez.multilocsplitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"Grain yield measured 3 locations 2 reps per location.   Within rep, main plot 6 nitrogen fertilizer treatments   sub plot 2 rice varieties.","code":""},{"path":"/reference/gomez.multilocsplitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"data frame 108 observations following 5 variables. loc location, 3 levels nitro nitrogen kg/ha rep replicate, 2 levels gen genotype, 2 levels yield yield, kg/ha Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.multilocsplitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 339.","code":""},{"path":"/reference/gomez.multilocsplitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"","code":"if (FALSE) { library(agridat) data(gomez.multilocsplitplot) dat <- gomez.multilocsplitplot dat$nf <- factor(dat$nitro)  # Gomez figure 8.3 libs(lattice) xyplot(yield~nitro, dat, group=loc, type=c('p','smooth'), auto.key=TRUE,        main=\"gomez.multilocsplitplot\")  # AOV # Be careful to use the right stratum, 'nf' appears in both strata. # Still not quite the same as Gomez table 8.21 t1 <- terms(yield ~ loc * nf * gen + Error(loc:rep:nf),             \"Error\", keep.order=TRUE) m1 <- aov(t1, data=dat) summary(m1)    # F values are somewhat similar to Gomez Table 8.21   libs(lme4)   m2 <- lmer(yield ~ loc*nf*gen + (1|loc/rep/nf), dat)   anova(m2)   ## Analysis of Variance Table   ##            Df   Sum Sq  Mean Sq F value   ## loc         2   117942    58971  0.1525   ## nf          5 72841432 14568286 37.6777   ## gen         1  7557570  7557570 19.5460   ## loc:nf     10 10137188  1013719  2.6218   ## loc:gen     2  4270469  2135235  5.5223   ## nf:gen      5  1501767   300353  0.7768   ## loc:nf:gen 10  1502273   150227  0.3885  }"},{"path":"/reference/gomez.nitrogen.html","id":null,"dir":"Reference","previous_headings":"","what":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"Soil nitrogen three times eight fertilizer treatments","code":""},{"path":"/reference/gomez.nitrogen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"data frame 96 observations following 4 variables. trt nitrogen treatment factor nitro soil nitrogen content, percent rep replicate stage growth stage, three periods","code":""},{"path":"/reference/gomez.nitrogen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"Eight fertilizer treatments tested. Soil nitrogen content measured three times.  P1 = 15 days post   transplanting. P2 = 40 days post transplanting. P3 = panicle initiation. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nitrogen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 259.","code":""},{"path":"/reference/gomez.nitrogen.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"R-help mailing list, 9 May 2013.   Data provided Cyril Lundrigan.  Analysis method Rich Heiberger.","code":""},{"path":"/reference/gomez.nitrogen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"","code":"library(agridat)  data(gomez.nitrogen) dat <- gomez.nitrogen  # Note the depletion of nitrogen over time (stage) libs(HH) #> Loading required package: grid #> Loading required package: multcomp #> Loading required package: mvtnorm #> Loading required package: survival #> Loading required package: TH.data #> Loading required package: MASS #>  #> Attaching package: ‘TH.data’ #> The following object is masked from ‘package:MASS’: #>  #>     geyser #> Loading required package: gridExtra #>  #> Attaching package: ‘HH’ #> The following object is masked from ‘package:base’: #>  #>     is.R interaction2wt(nitro ~ rep/trt + trt*stage, data=dat,                x.between=0, y.between=0,                main=\"gomez.nitrogen\")   # Just the fertilizer profiles with(dat, interaction.plot(stage, trt, nitro,                            col=1:4, lty=1:3, main=\"gomez.nitrogen\",                            xlab=\"Soil nitrogen at three times for each treatment\"))  # Gomez table 6.16 m1 <- aov(nitro ~ Error(rep/trt) + trt*stage, data=dat) summary(m1) #>  #> Error: rep #>           Df Sum Sq Mean Sq F value Pr(>F) #> Residuals  3 0.8457  0.2819                #>  #> Error: rep:trt #>           Df Sum Sq Mean Sq F value  Pr(>F)    #> trt        7 1.2658 0.18083   4.935 0.00201 ** #> Residuals 21 0.7695 0.03664                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>           Df Sum Sq Mean Sq F value   Pr(>F)     #> stage      2  52.04  26.021 715.871  < 2e-16 *** #> trt:stage 14   3.57   0.255   7.008 1.53e-07 *** #> Residuals 48   1.74   0.036                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1  # Gomez table 6.18 # Treatment                    1 2 3 4 5 6 7 8 cont <- cbind(\"T7 vs others\" = c( 1, 1, 1, 1, 1, 1,-7, 1),               \"T8 vs others\"  = c( 1, 1, 1, 1, 1, 1, 0,-6),               \"T2,T5 vs others\"   = c(-1, 2,-1,-1, 2,-1, 0, 0),               \"T2 vs T5\"       = c( 0, 1, 0, 0,-1, 0, 0, 0)) contrasts(dat$trt) <- cont contrasts(dat$trt) #>    T7 vs others T8 vs others T2,T5 vs others T2 vs T5               #> T1            1            1              -1        0 -3.028130e-01 #> T2            1            1               2        1  8.326673e-17 #> T3            1            1              -1        0 -2.101031e-01 #> T4            1            1              -1        0 -3.487772e-01 #> T5            1            1               2       -1  2.775558e-17 #> T6            1            1              -1        0  8.616933e-01 #> T7           -7            0               0        0 -1.387779e-17 #> T8            1           -6               0        0  0.000000e+00 #>                                #> T1 -6.632738e-01 -4.673031e-01 #> T2  8.326673e-17  0.000000e+00 #> T3 -1.136421e-01  8.324315e-01 #> T4  7.387109e-01 -2.875078e-01 #> T5  8.326673e-17  0.000000e+00 #> T6  3.820501e-02 -7.762061e-02 #> T7  5.551115e-17  2.775558e-17 #> T8  5.551115e-17  5.551115e-17  m2 <- aov(nitro ~ Error(rep/trt) + trt*stage, data=dat) summary(m2, expand.split=FALSE,         split=list(trt=list(                      \"T7 vs others\"=1,                      \"T8 vs others\"=2,                      \"T2,T5 vs others\"=3,                      \"T2 vs T5\"=4,                      rest=c(5,6,7)),           \"trt:stage\"=list(             \"(T7 vs others):P\"=c(1,8),             \"(T8 vs others):P\"=c(2,9),             \"(T2,T5 vs others):P\"=c(3,10),             \"(T2 vs T5):P\"=c(4,11),             \"rest:P\"=c(5,6,7,12,13,14))           )) #>  #> Error: rep #>           Df Sum Sq Mean Sq F value Pr(>F) #> Residuals  3 0.8457  0.2819                #>  #> Error: rep:trt #>                        Df Sum Sq Mean Sq F value  Pr(>F)    #> trt                     7 1.2658  0.1808   4.935 0.00201 ** #>   trt: T7 vs others     1 0.3511  0.3511   9.581 0.00548 ** #>   trt: T8 vs others     1 0.0455  0.0455   1.242 0.27761    #>   trt: T2,T5 vs others  1 0.0228  0.0228   0.621 0.43952    #>   trt: T2 vs T5         1 0.1176  0.1176   3.209 0.08764 .  #>   trt: rest             3 0.7289  0.2430   6.630 0.00252 ** #> Residuals              21 0.7695  0.0366                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>                                  Df Sum Sq Mean Sq F value   Pr(>F)     #> stage                             2  52.04  26.021 715.871  < 2e-16 *** #> trt:stage                        14   3.57   0.255   7.008 1.53e-07 *** #>   trt:stage: (T7 vs others):P     2   2.14   1.068  29.391 4.63e-09 *** #>   trt:stage: (T8 vs others):P     2   0.54   0.268   7.373 0.001613 **  #>   trt:stage: (T2,T5 vs others):P  2   0.64   0.321   8.843 0.000538 *** #>   trt:stage: (T2 vs T5):P         2   0.02   0.011   0.298 0.743303     #>   trt:stage: rest:P               6   0.23   0.038   1.051 0.404967     #> Residuals                        48   1.74   0.036                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1"},{"path":"/reference/gomez.nonnormal1.html","id":null,"dir":"Reference","previous_headings":"","what":"Insecticide treatment effectiveness — gomez.nonnormal1","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"Insecticide treatment effectiveness","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"","code":"data(\"gomez.nonnormal1\")"},{"path":"/reference/gomez.nonnormal1.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"data frame 36 observations following 3 variables. trt insecticidal treatment rep replicate larvae number larvae","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"Nine treatments (including control, T9) used four   replicates.  number living insect larvae recorded. data show signs non-normality, log transform used Gomez. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 300.","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"None.","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"","code":"library(agridat) data(gomez.nonnormal1) dat <- gomez.nonnormal1  # Gomez figure 7.3 ## libs(dplyr) ## dat2 <- dat %>% group_by(trt) ## dat2 <- summarize(dat2, mn=mean(larvae), rng=diff(range(larvae))) ## plot(rng ~ mn, data=dat2, ##      xlab=\"mean number of larvae\", ylab=\"range of number of larvae\", ##      main=\"gomez.nonnormal1\")   # Because some of the original values are less than 10, # the transform used is log10(x+1) instead of log10(x). dat <- transform(dat, tlarvae=log10(larvae+1))  # QQ plots for raw/transformed data libs(reshape2, lattice) qqmath( ~ value|variable, data=melt(dat),        main=\"gomez.nonnormal1 - raw/transformed QQ plot\",        scales=list(relation=\"free\")) #> Using trt, rep as id variables    # Gomez table 7.16 m1 <- lm(tlarvae ~ rep + trt, data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: tlarvae #>           Df Sum Sq Mean Sq F value    Pr(>F)     #> rep        3 0.9567 0.31889  3.6511 0.0267223 *   #> trt        8 3.9823 0.49779  5.6995 0.0004092 *** #> Residuals 24 2.0961 0.08734                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: tlarvae ##           Df Sum Sq Mean Sq F value    Pr(>F) ## rep        3 0.9567 0.31889  3.6511 0.0267223 * ## trt        8 3.9823 0.49779  5.6995 0.0004092 *** ## Residuals 24 2.0961 0.08734"},{"path":"/reference/gomez.nonnormal2.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"RCB experiment rice, measuring white heads","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"","code":"data(\"gomez.nonnormal2\")"},{"path":"/reference/gomez.nonnormal2.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"data frame 42 observations following 3 variables. gen genotype rep replicate white percentage white heads","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"data percent white heads rice variety trial   14 varieties 3 reps.  many values less   10, suggested data transformation sqrt(x+.5). Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 300.","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"None.","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"","code":"library(agridat)  data(gomez.nonnormal2) dat <- gomez.nonnormal2  # Gomez suggested sqrt transform dat <- transform(dat, twhite = sqrt(white+.5))  # QQ plots for raw/transformed data libs(reshape2, lattice) qqmath( ~ value|variable, data=melt(dat),        main=\"gomez.nonnormal2 - raw/transformed QQ plot\",        scales=list(relation=\"free\")) #> Using gen, rep as id variables   # Gomez anova table 7.21 m1 <- lm(twhite ~ rep + gen, data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: twhite #>           Df Sum Sq Mean Sq F value    Pr(>F)     #> rep        2  2.401  1.2004  1.9137    0.1678     #> gen       13 48.011  3.6931  5.8877 6.366e-05 *** #> Residuals 26 16.309  0.6273                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: twhite2 ##           Df Sum Sq Mean Sq F value    Pr(>F) ## rep        2  2.401  1.2004  1.9137    0.1678 ## gen       13 48.011  3.6931  5.8877 6.366e-05 *** ## Residuals 26 16.309  0.6273"},{"path":"/reference/gomez.nonnormal3.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"RCB experiment rice, 12 varieties leafhopper survival","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"","code":"data(\"gomez.nonnormal3\")"},{"path":"/reference/gomez.nonnormal3.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"data frame 36 observations following 3 variables. gen genotype/variety rice rep replicate hoppers percentage surviving leafhoppers","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"rice variety, 75 leafhoppers caged percentage   surviving insects determined. Gomez suggest replacing 0 values 1/(4*75) replacing 100   1-1/(4*75) 75 number insects. effect, means, example, (1/4)th insect survived. data percents, Gomez suggested using arcsin   transformation. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 307.","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"None.","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"","code":"library(agridat) data(gomez.nonnormal3) dat <- gomez.nonnormal3  # First, replace 0, 100 values dat$thoppers <- dat$hoppers dat <- transform(dat, thoppers=ifelse(thoppers==0, 1/(4*75), thoppers)) dat <- transform(dat, thoppers=ifelse(thoppers==100, 100-1/(4*75), thoppers)) # Arcsin transformation of percentage p converted to degrees # is arcsin(sqrt(p))/(pi/2)*90 dat <- transform(dat, thoppers=asin(sqrt(thoppers/100))/(pi/2)*90)  # QQ plots for raw/transformed data libs(reshape2, lattice) qqmath( ~ value|variable, data=melt(dat),        main=\"gomez.nonnormal3 - raw/transformed QQ plot\",        scales=list(relation=\"free\")) #> Using gen, rep as id variables   m1 <- lm(thoppers ~ gen, data=dat) anova(m1) # Match Gomez table 7.25 #> Analysis of Variance Table #>  #> Response: thoppers #>           Df  Sum Sq Mean Sq F value    Pr(>F)     #> gen       11 16838.7 1530.79  16.502 1.316e-08 *** #> Residuals 24  2226.4   92.77                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: thoppers ##           Df  Sum Sq Mean Sq F value    Pr(>F) ## gen       11 16838.7 1530.79  16.502 1.316e-08 *** ## Residuals 24  2226.4   92.77"},{"path":"/reference/gomez.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — gomez.rice.uniformity","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"Uniformity trial rice Philippines.","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"data frame 648 observations following 3 variables. row row col column yield grain yield, grams/m^2","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"area 20 meters 38 meters planted rice variety IR8.    harvest, 1-meter border removed around field discarded.   square meter (1 meter 1 meter) harvested weighed. Field width: 18 plots x 1 m = 18 m Field length: 38 plots x 1 m = 38 m Note Gomez published paper 1969 rice uniformity data.   Quite likely data. Estimated harvest year 1968. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"Gomez, K.. Gomez, .. (1984).   Statistical Procedures Agricultural Research.   Wiley-Interscience. Page 481.","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(gomez.rice.uniformity) dat <- gomez.rice.uniformity  libs(desplot) # Raw data plot desplot(dat, yield ~ col*row,         aspect=38/18, # true aspect         main=\"gomez.rice.uniformity\")  libs(desplot, reshape2) # 3x3 moving average.  Gomez figure 12.1 dmat <- melt(dat, id.var=c('col','row')) dmat <- acast(dmat, row~col) m0 <- dmat cx <- 2:17 rx <- 2:35 dmat3 <- (m0[rx+1,cx+1]+m0[rx+1,cx]+m0[rx+1,cx-1]+             m0[rx,cx+1]+m0[rx,cx]+m0[rx,cx-1]+             m0[rx-1,cx+1]+m0[rx-1,cx]+m0[rx-1,cx-1])/9 dat3 <- melt(dmat3) desplot(dat3, value~Var2*Var1,         aspect=38/18,         at=c(576,637,695,753,811,870,927),         main=\"gomez.rice.uniformity smoothed\")   libs(agricolae)  # Gomez table 12.4 tab <- index.smith(dmat,                    main=\"gomez.rice.uniformity\",                    col=\"red\")$uniformity tab <- data.frame(tab)    ## # Gomez figure 12.2 ## op <- par(mar=c(5,4,4,4)+.1) ## m1 <- nls(Vx ~ 9041/Size^b, data=tab, start=list(b=1)) ## plot(Vx ~ Size, tab, xlab=\"Plot size, m^2\") ## lines(fitted(m1) ~ tab$Size, col='red') ## axis(4, at=tab$Vx, labels=tab$CV) ## mtext(\"CV\", 4, line=2) ## par(op)  }"},{"path":"/reference/gomez.seedrate.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, 6 densities — gomez.seedrate","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"RCB experiment rice, 6 densities","code":""},{"path":"/reference/gomez.seedrate.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"data frame 24 observations following 3 variables. rate kg seeds per hectare rep rep (block), four levels yield yield, kg/ha","code":""},{"path":"/reference/gomez.seedrate.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"Rice yield six different densities RCB design. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.seedrate.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"Gomez, K.. Gomez, .. 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 26.","code":""},{"path":"/reference/gomez.seedrate.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"","code":"library(agridat) data(gomez.seedrate) dat <- gomez.seedrate  libs(lattice) xyplot(yield ~ rate, data=dat, group=rep, type='b',        main=\"gomez.seedrate\", auto.key=list(columns=4))   # Quadratic response.  Use raw polynomials so we can compute optimum m1 <- lm(yield ~ rep + poly(rate,2,raw=TRUE), dat) -coef(m1)[5]/(2*coef(m1)[6]) # Optimum is at 29 #> poly(rate, 2, raw = TRUE)1  #>                     29.148   # Plot the model predictions libs(latticeExtra) newdat <- expand.grid(rep=levels(dat$rep), rate=seq(25,150)) newdat$pred <- predict(m1, newdat) p1 <- aggregate(pred ~ rate, newdat, mean) # average reps   xyplot(yield ~ rate, data=dat, group=rep, type='b',          main=\"gomez.seedrate (with model predictions)\", auto.key=list(columns=4)) +     xyplot(pred ~ rate, p1, type='l', col='black', lwd=2)"},{"path":"/reference/gomez.splitplot.subsample.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"Split-plot experiment rice, subsamples","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"data frame 186 observations following 5 variables. time time factor, T1-T4 manage management, M1-M6 rep rep/block, R1-R3 sample subsample, S1-S2 height plant height (cm)","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"split-plot experiment three blocks.  Whole-plot 'management',   sub-plot 'time' application, two subsamples.  data   heights, measured two single-hill sampling units plot. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 481.","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"","code":"if (FALSE) {  library(agridat) data(gomez.splitplot.subsample) dat <- gomez.splitplot.subsample  libs(HH) interaction2wt(height ~ rep + time + manage, data=dat,                x.between=0, y.between=0,                main=\"gomez.splitplot.subsample - plant height\")   # Management totals, Gomez table 6.8 # tapply(dat$height, dat$manage, sum)  # Gomez table 6.11 analysis of variance m1 <- aov(height ~ rep + manage + time + manage:time +           Error(rep/manage/time), data=dat) summary(m1) ## Error: rep ##     Df Sum Sq Mean Sq ## rep  2   2632    1316  ## Error: rep:manage ##           Df Sum Sq Mean Sq F value Pr(>F) ## manage     7   1482  211.77   2.239 0.0944 . ## Residuals 14   1324   94.59 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: rep:manage:time ##             Df Sum Sq Mean Sq F value   Pr(>F) ## time         3  820.8  273.61   7.945 0.000211 *** ## manage:time 21  475.3   22.63   0.657 0.851793 ## Residuals   48 1653.1   34.44 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: Within ##           Df Sum Sq Mean Sq F value Pr(>F) ## Residuals 96  167.4   1.744  }"},{"path":"/reference/gomez.splitsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-split-plot experiment of rice — gomez.splitsplit","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"Grain yield three varieties rice grown split-split plot   arrangement 3 reps, nitrogen level main plot, management   practice sub-plot, rice variety sub-sub plot.","code":""},{"path":"/reference/gomez.splitsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"data frame 135 observations following 7 variables. rep block, 3 levels nitro nitrogen fertilizer, kilograms/hectare management plot management gen genotype/variety rice yield yield col column position field row row position field Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.splitsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 143.","code":""},{"path":"/reference/gomez.splitsplit.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"H. P. Piepho, R. N. Edmondson. (2018).   tutorial statistical analysis factorial experiments   qualitative quantitative treatment factor levels.   Jour Agronomy Crop Science, 8, 1-27.   https://doi.org/10.1111/jac.12267","code":""},{"path":"/reference/gomez.splitsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"","code":"if (FALSE) {  library(agridat)  data(gomez.splitsplit) dat <- gomez.splitsplit dat$nf <- factor(dat$nitro)  libs(desplot) desplot(dat, nf ~ col*row,         # aspect unknown         out1=rep, col=management, num=gen, cex=1,         main=\"gomez.splitsplit\") desplot(dat, yield ~ col*row,         # aspect unknown         out1=rep, main=\"gomez.splitsplit\")   libs(HH) position(dat$nf) <- c(0,50,80,110,140) interaction2wt(yield~rep+nf+management+gen, data=dat,                main=\"gomez.splitsplit\",                x.between=0, y.between=0,                relation=list(x=\"free\", y=\"same\"),                rot=c(90,0), xlab=\"\",                par.strip.text.input=list(cex=.7))   # AOV.  Gomez page 144-153 m0 <- aov(yield~ nf * management * gen + Error(rep/nf/management),          data=dat) summary(m0) # Similar to Gomez, p. 153.  }"},{"path":"/reference/gomez.stripplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Strip-plot experiment of rice — gomez.stripplot","title":"Strip-plot experiment of rice — gomez.stripplot","text":"strip-plot experiment three reps, variety horizontal   strip nitrogen fertilizer vertical strip.","code":""},{"path":"/reference/gomez.stripplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Strip-plot experiment of rice — gomez.stripplot","text":"yield Grain yield kg/ha rep Rep nitro Nitrogen fertilizer kg/ha gen Rice variety col column row row","code":""},{"path":"/reference/gomez.stripplot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Strip-plot experiment of rice — gomez.stripplot","text":"Note, subset 'gomez.stripsplitplot' data. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.stripplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Strip-plot experiment of rice — gomez.stripplot","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 110.","code":""},{"path":"/reference/gomez.stripplot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Strip-plot experiment of rice — gomez.stripplot","text":"Jan Gertheiss (2014).   ANOVA Factors Ordered Levels.   J Agric Biological Environmental Stat, 19, 258-277.","code":""},{"path":"/reference/gomez.stripplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Strip-plot experiment of rice — gomez.stripplot","text":"","code":"library(agridat) data(gomez.stripplot) dat <- gomez.stripplot  # Gomez figure 3.7 libs(desplot) desplot(dat, gen ~ col*row,         # aspect unknown         out1=rep, out2=nitro, num=nitro, cex=1,         main=\"gomez.stripplot\")    # Gertheiss figure 1 # library(lattice) # dotplot(factor(nitro) ~ yield|gen, data=dat)  # Gomez table 3.12 # tapply(dat$yield, dat$rep, sum) # tapply(dat$yield, dat$gen, sum) # tapply(dat$yield, dat$nitro, sum)  # Gomez table 3.15.  Anova table for strip-plot dat <- transform(dat, nf=factor(nitro)) m1 <- aov(yield ~ gen * nf + Error(rep + rep:gen + rep:nf), data=dat) summary(m1) #>  #> Error: rep #>           Df  Sum Sq Mean Sq F value Pr(>F) #> Residuals  2 9220962 4610481                #>  #> Error: rep:gen #>           Df   Sum Sq  Mean Sq F value  Pr(>F)    #> gen        5 57100201 11420040   7.653 0.00337 ** #> Residuals 10 14922619  1492262                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: rep:nf #>           Df   Sum Sq  Mean Sq F value  Pr(>F)    #> nf         2 50676061 25338031   34.07 0.00307 ** #> Residuals  4  2974908   743727                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>           Df   Sum Sq Mean Sq F value   Pr(>F)     #> gen:nf    10 23877979 2387798   5.801 0.000427 *** #> Residuals 20  8232917  411646                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Error: rep ##           Df  Sum Sq Mean Sq F value Pr(>F) ## Residuals  2 9220962 4610481  ## Error: rep:gen ##           Df   Sum Sq  Mean Sq F value  Pr(>F) ## gen        5 57100201 11420040   7.653 0.00337 ** ## Residuals 10 14922619  1492262 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: rep:nf ##           Df   Sum Sq  Mean Sq F value  Pr(>F) ## nf         2 50676061 25338031   34.07 0.00307 ** ## Residuals  4  2974908   743727 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: Within ##           Df   Sum Sq Mean Sq F value   Pr(>F) ## gen:nf    10 23877979 2387798   5.801 0.000427 *** ## Residuals 20  8232917  411646   # More compact view ## libs(agricolae) ## with(dat, strip.plot(rep, nf, gen, yield))  ## Analysis of Variance Table ## Response: yield ##        Df   Sum Sq  Mean Sq F value    Pr(>F) ## rep     2  9220962  4610481 11.2001 0.0005453 *** ## nf      2 50676061 25338031 34.0690 0.0030746 ** ## Ea      4  2974908   743727  1.8067 0.1671590 ## gen     5 57100201 11420040  7.6528 0.0033722 ** ## Eb     10 14922619  1492262  3.6251 0.0068604 ** ## gen:nf 10 23877979  2387798  5.8006 0.0004271 *** ## Ec     20  8232917   411646   # Mixed-model version ## libs(lme4) ## m3 <- lmer(yield ~ gen * nf + (1|rep) + (1|rep:nf) + (1|rep:gen), data=dat) ## anova(m3)  ## Analysis of Variance Table ##        Df   Sum Sq  Mean Sq F value ## gen     5 15751300  3150260  7.6528 ## nf      2 28048730 14024365 34.0690 ## gen:nf 10 23877979  2387798  5.8006"},{"path":"/reference/gomez.stripsplitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Strip-split-plot experiment of rice — gomez.stripsplitplot","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"strip-split-plot experiment three reps, genotype horizontal   strip, nitrogen fertilizer vertical strip, planting method   subplot factor.","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"yield grain yield kg/ha planting planting factor, P1=broadcast, P2=transplanted rep rep, 3 levels nitro nitrogen fertilizer, kg/ha gen genotype, G1 G6 col column row row","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"Note, superset 'gomez.stripplot' data. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 155.","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"","code":"if (FALSE) {  library(agridat) data(gomez.stripsplitplot) dat <- gomez.stripsplitplot  # Layout libs(desplot) desplot(dat, gen ~ col*row,         out1=rep, col=nitro, text=planting, cex=1,         main=\"gomez.stripsplitplot\")   # Gomez table 4.19, ANOVA of strip-split-plot design dat <- transform(dat, nf=factor(nitro)) m1 <- aov(yield ~ nf * gen * planting +           Error(rep + rep:nf + rep:gen + rep:nf:gen), data=dat) summary(m1)  # There is a noticeable linear trend along the y coordinate which may be # an artifact that blocking will remove, or may need to be modeled. # Note the outside values in the high-nitro boxplot. libs(\"HH\") interaction2wt(yield ~ nitro + gen + planting + row, dat,                x.between=0, y.between=0,                x.relation=\"free\")  }"},{"path":"/reference/gomez.wetdry.html","id":null,"dir":"Reference","previous_headings":"","what":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Rice yield wet & dry seasons nitrogen fertilizer treatments","code":""},{"path":"/reference/gomez.wetdry.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"data frame 96 observations following 4 variables. season season = wet/dry nitrogen nitrogen fertilizer kg/ha rep replicate yield grain yield, t/ha","code":""},{"path":"/reference/gomez.wetdry.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Five nitrogen fertilizer treatments tested 2 seasons using 3 reps. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.wetdry.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 318.","code":""},{"path":"/reference/gomez.wetdry.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Rong-Cai Yang, Patricia Juskiw. (2011).   Analysis covariance agronomy crop research.   Canadian Journal Plant Science, 91:621-641.   https://doi.org/10.4141/cjps2010-032","code":""},{"path":"/reference/gomez.wetdry.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"","code":"if (FALSE) {  library(agridat) data(gomez.wetdry) dat <- gomez.wetdry  libs(lattice) foo1 <- xyplot(yield ~ nitrogen|season, data=dat,                 group=rep,type='l',auto.key=list(columns=3),                ylab=\"yield in each season\",                main=\"gomez.wetdry raw data & model\")  # Yang & Juskiw fit a quadratic model with linear and quadratic # contrasts using non-equal intervals of nitrogen levels. # This example below omits the tedious contrasts  libs(latticeExtra, lme4) m1 <-lmer(yield ~ season*poly(nitrogen, 2) + (1|season:rep), data=dat) pdat <- expand.grid(season=c('dry','wet'),                     nitrogen=seq(from=0,to=150,by=5)) pdat$pred <- predict(m1, newdata=pdat, re.form= ~ 0) foo1 +    xyplot(pred ~ nitrogen|season, data=pdat, type='l',lwd=2,col=\"black\")   # m2 <-lmer(yield ~ poly(nitrogen, 2) + (1|season:rep), data=dat) # anova(m1,m2) ## m2: yield ~ poly(nitrogen, 2) + (1 | season:rep) ## m1: yield ~ season * poly(nitrogen, 2) + (1 | season:rep) ##    Df    AIC    BIC  logLik deviance  Chisq Chi Df Pr(>Chisq)     ## m2  5 86.418 93.424 -38.209   76.418                              ## m1  8 64.216 75.425 -24.108   48.216 28.202      3  3.295e-06 ***  }"},{"path":"/reference/gotway.hessianfly.html","id":null,"dir":"Reference","previous_headings":"","what":"Hessian fly damage to wheat varieties — gotway.hessianfly","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"Hessian fly damage wheat varieties","code":""},{"path":"/reference/gotway.hessianfly.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"block block factor, 4 levels genotype factor, 16 wheat varieties  lat latitude, numeric long longitude, numeric y number damaged plants n number total plants","code":""},{"path":"/reference/gotway.hessianfly.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"response binomial. plot square.","code":""},{"path":"/reference/gotway.hessianfly.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"C. . Gotway W. W. Stroup.   Generalized Linear Model Approach Spatial Data Analysis Prediction   Journal Agricultural, Biological, Environmental     Statistics, 2, 157-178. https://doi.org/10.2307/1400401","code":""},{"path":"/reference/gotway.hessianfly.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"GLIMMIX procedure. https://www.ats.ucla.edu/stat/SAS/glimmix.pdf","code":""},{"path":"/reference/gotway.hessianfly.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"","code":"if (FALSE) {    library(agridat)   data(gotway.hessianfly)   dat <- gotway.hessianfly      dat$prop <- dat$y / dat$n      libs(desplot)   desplot(dat, prop~long*lat,           aspect=1, # true aspect           out1=block, num=gen, cex=.75,           main=\"gotway.hessianfly\")       # ----------------------------------------------------------------------------    # spaMM package example   libs(spaMM)   m1 = HLCor(cbind(y, n-y) ~ 1 + gen + (1|block) + Matern(1|long+lat),              data=dat, family=binomial(), ranPars=list(nu=0.5, rho=1/.7))   summary(m1)   fixef(m1)   # The following line fails with \"Invalid graphics state\"   # when trying to use pkgdown::build_site   # filled.mapMM(m1)    # ----------------------------------------------------------------------------    # Block random.  See Glimmix manual, output 1.18.   # Note: (Different parameterization)      libs(lme4)   l2 <- glmer(cbind(y, n-y) ~ gen + (1|block), data=dat, family=binomial,     control=glmerControl(check.nlev.gtr.1=\"ignore\"))   coef(l2)  }"},{"path":"/reference/goulden.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — goulden.barley.uniformity","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"Uniformity trial barley Canada","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"data frame 400 observations following 3 variables. row row col column yield yield, grams per plot","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"Yield (grams) 2304 square-yard plots barley grown field   48 yards side Dominion Rust Research Laboratory (Manitoba,   Canada) 1931. field sown half density one direction,   half-density perpendicular direction. letter Goulden Cochran, Goulden said: intended   use yields study effect systematic arrangements   also measure bias semi-Latin squares...correlation   adjacent pairs plots high (0.5) difficult   demonstrate bias satisfactory manner. Note: data Goulden (1939) subset 20 rows columns   one corner field full dataset. Field width: 48 plots x 3 feet = 144 feet Field length: 48 plots x 3 feet = 144 feet data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"C. H. Goulden, (1939).   Methods statistical analysis, 1st ed. Page 18.     https://archive.org/stream/methodsofstatist031744mbp   Note: version 20 plots x 20 plots. Leonard, Warren Andrew Clark (1939).   Field Plot Technique. Page 39.   https://archive.org/stream/fieldplottechniq00leon   Note: version 20 plots x 20 plots.","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(goulden.barley.uniformity) dat <- goulden.barley.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         aspect=48/48, # true aspect         main=\"goulden.barley.uniformity\")  # Left skewed distribution. See LeClerg, Leonard, Clark hist(dat$yield, main=\"goulden.barley.uniformity\",      breaks=c(21,40,59,78,97,116,135,154,173,192,211,230,249,268,287)+.5)  }"},{"path":"/reference/goulden.eggs.html","id":null,"dir":"Reference","previous_headings":"","what":"Sample of egg weights on 24 consecutive days — goulden.eggs","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"Sample egg weights 24 consecutive days","code":""},{"path":"/reference/goulden.eggs.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"","code":"data(\"goulden.eggs\")"},{"path":"/reference/goulden.eggs.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"data frame 240 observations following 2 variables. day day weight weight","code":""},{"path":"/reference/goulden.eggs.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"Data weights 10 eggs taken random day 24   days.  Day 1 Dec 10, Day 24 Jan 2. control chart standard deviations shows 4 values beyond   upper limits. data reveals single, unusually large egg   days.  almost surely double-yolk eggs.","code":""},{"path":"/reference/goulden.eggs.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"Cyrus H. Goulden (1952).   Methods Statistical Analysis, 2nd ed. Page 425.","code":""},{"path":"/reference/goulden.eggs.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"None.","code":""},{"path":"/reference/goulden.eggs.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"","code":"if (FALSE) {  library(agridat) data(goulden.eggs) dat <- goulden.eggs  libs(qicharts) # Figure 19-4 of Goulden. (Goulden uses 1/n when calculating std dev) op <- par(mfrow=c(2,1)) qic(weight, x = day, data = dat, chart = 'xbar',     main = 'goulden.eggs - Xbar chart',     xlab = 'Date', ylab = 'Avg egg weight' ) qic(weight, x = day, data = dat, chart = 's',     main = 'goulden.eggs - S chart',     xlab = 'Date', ylab = 'Std dev egg weight' ) par(op)  }"},{"path":"/reference/goulden.latin.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square experiment for testing fungicide — goulden.latin","title":"Latin square experiment for testing fungicide — goulden.latin","text":"Latin square experiment testing fungicide","code":""},{"path":"/reference/goulden.latin.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Latin square experiment for testing fungicide — goulden.latin","text":"","code":"data(\"goulden.latin\")"},{"path":"/reference/goulden.latin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square experiment for testing fungicide — goulden.latin","text":"data frame 25 observations following 4 variables. trt treatment factor, 5 levels yield yield row row col column","code":""},{"path":"/reference/goulden.latin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Latin square experiment for testing fungicide — goulden.latin","text":"Five treatments tested control stem rust wheat.  Treatment   codes descriptions:    =  Dusted rains.   B  =  Dusted rains.   C  =  Dusted week.   D  =  Drifting,  week.   E  =  dusted.","code":""},{"path":"/reference/goulden.latin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square experiment for testing fungicide — goulden.latin","text":"Cyrus H. Goulden (1952).   Methods Statistical Analysis, 2nd ed. Page 216.","code":""},{"path":"/reference/goulden.latin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square experiment for testing fungicide — goulden.latin","text":"","code":"if (FALSE) {  library(agridat) library(agridat) data(goulden.latin) dat <- goulden.latin   libs(desplot) desplot(dat, yield ~ col*row,         text=trt, cex=1, # aspect unknown         main=\"goulden.latin\")   # Matches Goulden. m1 <- lm(yield~ trt + factor(row) + factor(col), data=dat) anova(m1)  }"},{"path":"/reference/goulden.splitsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-split-plot experiment of wheat — goulden.splitsplit","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"Split-split-plot experiment wheat","code":""},{"path":"/reference/goulden.splitsplit.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"","code":"data(\"goulden.splitsplit\")"},{"path":"/reference/goulden.splitsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"data frame 160 observations following 9 variables. row row col column yield yield inoc inoculate trt treatment number gen genotype dry dry/wet dust application dust dust treatment block block","code":""},{"path":"/reference/goulden.splitsplit.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"interesting split-split plot experiment sub-plot   treatments 2*5 factorial structure. experiment conducted 1932 experimental field   Dominion Rust Research Laboratory.  study designed   determine effect incidence root rot, variety   wheat, kinds dust seed treatment, method application   dust, efficacy soil inoculation root-rot organism. field 4 blocks. block 2 whole plots genotypes. whole-plot 10 sub-plots 5 different kinds dust   2 methods application. sub-plot 2 sub-sub-plots, one inoculated soil   one uninoculated soil.","code":""},{"path":"/reference/goulden.splitsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"C. H. Goulden, (1939).   Methods statistical analysis, 1st ed. Page 18.    https://archive.org/stream/methodsofstatist031744mbp","code":""},{"path":"/reference/goulden.splitsplit.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"None","code":""},{"path":"/reference/goulden.splitsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"","code":"if (FALSE) {  library(agridat) data(goulden.splitsplit) dat <- goulden.splitsplit  libs(desplot)  ## Experiment design. Goulden p. 152-153 ## desplot(gen ~ col*row, data=dat, ##         out1=block, out2=trt, text=dust, col=inoc, cex=1, ##         main=\"goulden.splitsplit\")  desplot(dat, yield ~ col*row,          out1=block, out2=gen,         col=inoc, num=trt, cex=1,         main=\"goulden.splitsplit\")   # Match Goulden table 40 m1 <- aov(yield ~ gen           + dust + dry + dust:dry + gen:dust + gen:dry + gen:dust:dry           + inoc + inoc:gen + inoc:dust + inoc:dry           + inoc:dust:dry +inoc:gen:dust + inoc:gen:dry           + Error(block/(gen+gen:dust:dry+gen:inoc:dry)), data=dat) summary(m1)  }"},{"path":"/reference/graybill.heteroskedastic.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"Wheat varieties heteroskedastic yields","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"data frame 52 observations following 3 variables. env environment, 13 levels gen genotype, 4 levels yield yield","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"Yield 4 varieties wheat 13 locations Oklahoma, USA. data used explore variability varieties.","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"F. . Graybill, 1954.   Variance heterogeneity randomized block design,   Biometrics, 10, 516-520.","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"Hans-Pieter Piepho, 1994.   Missing observations analysis stability.   Heredity, 72, 141--145.   https://doi.org/10.1038/hdy.1994.20","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"","code":"if (FALSE) {  library(agridat) data(graybill.heteroskedastic) dat <- graybill.heteroskedastic  # Genotypes are obviously not homoscedastic boxplot(yield ~ gen, dat, main=\"graybill.heteroskedastic\")  # Shukla stability variance of each genotype, same as Grubbs' estimate # Matches Piepho 1994 page 143. # Do not do this!  Nowadays, use mixed models instead. libs(\"reshape2\") datm <- acast(dat, gen~env) w <- datm w <- sweep(w, 1, rowMeans(datm)) w <- sweep(w, 2, colMeans(datm)) w <- w + mean(datm) w <- rowSums(w^2) k=4; n=13 sig2 <- k*w/((k-2)*(n-1)) - sum(w)/((k-1)*(k-2)*(n-1)) ## sig2 ##     G1     G2     G3     G4 ## 145.98 -14.14  75.15  18.25  var.shukla <- function(x,N){   # Estimate variance of shukla stability statistics   # Piepho 1994 equation (5)   K <- length(x) # num genotypes   S <- outer(x,x)   S1 <- diag(S)   S2 <- rowSums(S) - S1   S[!upper.tri(S)] <- 0 # Make S upper triangular   # The ith element of S3 is the sum of the upper triangular elements of S,   # excluding the ith row and ith column   S3 <- sum(S) - rowSums(S) - colSums(S)   var.si2 <- 2*S1/(N-1) + 4/( (N-1)*(K-1)^2 ) * ( S2 + S3/(K-2)^2 )   return(var.si2) }  # Set negative estimates to zero sig2[sig2<0] <- 0  # Variance of shukla stat. Match Piepho 1994, table 5, example 1 var.shukla(sig2,13) ##        G1        G2        G3        G4  ## 4069.3296  138.9424 1423.0797  306.5270   }"},{"path":"/reference/gregory.cotton.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of cotton in Sudan. — gregory.cotton","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Factorial experiment cotton Sudan.","code":""},{"path":"/reference/gregory.cotton.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"","code":"data(\"gregory.cotton\")"},{"path":"/reference/gregory.cotton.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"data frame 144 observations following 6 variables. yield yield year year nitrogen nitrogen level date sowing date water irrigation amount spacing spacing plants","code":""},{"path":"/reference/gregory.cotton.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Experiment conducted Sudan Gezira Research Farm 1929-1930   1930-1931.  effects yield four factors studied   possible combinations. Sowing dates 1929: D1 = Jul 24, D2 = Aug 11, D3 = Sep 2, D4 = Sep 25. Spacing: S1 = 25 cm holes, S2 = 50 cm, S3 = 75 cm. usual   spacing 50-70 cm. Irrigation: I1 = Light, I2 = Medium, I3 = Heavy. Nitrogen: N0 = None/Control, N1 = 600 rotls/feddan. year 4*3*2*2=72 treatments, replicated four   times. means given . Gregory (1932) two interesting graphics:   1. radial bar plot   2. photographs 3D model treatment means.","code":""},{"path":"/reference/gregory.cotton.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Gregory, FG Crowther, F Lambert, AR (1932).   interrelation factors controlling production cotton   irrigation Sudan.   Journal Agricultural Science, 22, 617-638. Table 1, 10.   https://doi.org/10.1017/S0021859600054137","code":""},{"path":"/reference/gregory.cotton.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Paterson, D. Statistical Technique Agricultural Research, p. 211.","code":""},{"path":"/reference/gregory.cotton.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"","code":"if (FALSE) {  library(agridat) data(gregory.cotton) dat <- gregory.cotton  # Main effect means, Gregory table 2 ## libs(dplyr) ## dat  ## dat  ## dat  ## dat    # Figure 2 of Gregory. Not recommended, but an interesting exercise. # https://stackoverflow.com/questions/13887365 if(FALSE){   libs(ggplot2)   d1 <- subset(dat, year==\"Y1\")   d1 <- transform(d1, grp=factor(paste(date,nitrogen,water,spacing)))   d1 <- d1[order(d1$grp),] # for angles   # Rotate labels on the left half 180 deg. First 18, last 18 labels   d1$ang <- 90+seq(from=(360/nrow(d1))/1.5, to=(1.5*(360/nrow(d1)))-360,                    length.out=nrow(d1))+80   d1$ang[1:18] <- d1$ang[1:18] + 180   d1$ang[55:72] <- d1$ang[55:72] + 180   # Lables on left half to right-adjusted   d1$hjust <- 0   d1$hjust[1:18] <- d1$hjust[55:72] <- 1      gg <- ggplot(d1, aes(x=grp,y=yield,fill=factor(spacing))) +     geom_col() +     guides(fill=FALSE) + # no legend for 'spacing'     coord_polar(start=-pi/2) + # default is to start at top     labs(title=\"gregory.cotton 1929\",x=\"\",y=\"\",label=\"\") +     # The bar columns are centered on 1:72, subtract 0.5 to add radial axes     geom_vline(xintercept = seq(1, 72, by=3)-0.5, color=\"gray\", size=.25) +     geom_vline(xintercept = seq(1, 72, by=18)-0.5, size=1) +     geom_vline(xintercept = seq(1, 72, by=9)-0.5, size=.5) +     geom_hline(yintercept=c(1,2,3)) +      geom_text(data=d1, aes(x=grp, y=max(yield), label=grp, angle=ang, hjust=hjust),               size=2) +     theme(panel.background=element_blank(),           axis.title=element_blank(),           panel.grid=element_blank(),           axis.text.x=element_blank(),           axis.text.y=element_blank(),           axis.ticks=element_blank() )   print(gg)    } }"},{"path":"/reference/grover.diallel.html","id":null,"dir":"Reference","previous_headings":"","what":"Diallel 6x6 — grover.diallel","title":"Diallel 6x6 — grover.diallel","text":"Diallel 6x6 4 blocks.","code":""},{"path":"/reference/grover.diallel.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Diallel 6x6 — grover.diallel","text":"","code":"data(\"grover.diallel\")"},{"path":"/reference/grover.diallel.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diallel 6x6 — grover.diallel","text":"data frame 144 observations following 5 variables. yield yield value rep character vector parent1 character vector parent2 character vector cross character vector","code":""},{"path":"/reference/grover.diallel.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diallel 6x6 — grover.diallel","text":"Yield 6x6 diallel 4 reps. Note: mean 2x2 cross slightly different Grover   p. 252. appears unknown error one 4 reps   data page 250.","code":""},{"path":"/reference/grover.diallel.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diallel 6x6 — grover.diallel","text":"Grover, Deepak & Lajpat Rai (2010).   Experimental Designing Data Analysis Agriculture Biology.   Agrotech Publishing Academy. Page 85.   https://archive.org/details/expldesnanddatanalinagblg00023","code":""},{"path":"/reference/grover.diallel.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Diallel 6x6 — grover.diallel","text":"None","code":""},{"path":"/reference/grover.diallel.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diallel 6x6 — grover.diallel","text":"","code":"if (FALSE) {   data(grover.diallel)   dat <- grover.diallel    anova(aov(yield ~ rep + cross, data=dat))    # These effects match the GCA and SCA values in Grover table 3, page 253.      libs(lmDiallel)   m2 <- lm.diallel(yield ~ parent1 + parent2, Block=rep,                    data=dat, fct=\"GRIFFING1\")   library(multcomp)   summary( glht(linfct=diallel.eff(m2), test=adjusted(type=\"none\")) )   ## Linear Hypotheses:   ##                Estimate Std. Error t value Pr(>|t|)       ## Intercept == 0  93.0774     0.9050 102.851    <0.01 ***   ## g_P1 == 0        1.4851     1.4309   1.038   1.0000       ## g_P2 == 0       -0.9911     1.4309  -0.693   1.0000       ## g_P3 == 0        2.2631     1.4309   1.582   0.9748       ## g_P4 == 0        5.4247     1.4309   3.791   0.0302 *     ## g_P5 == 0       -4.2490     1.4309  -2.969   0.1972       ## g_P6 == 0       -3.9328     1.4309  -2.748   0.3008       ## ts_P1:P1 == 0  -10.4026     4.5249  -2.299   0.6014       ## ts_P1:P2 == 0   -9.7214     3.2629  -2.979   0.1933       ## ts_P1:P3 == 0   -0.4581     3.2629  -0.140   1.0000       ## ts_P1:P4 == 0   17.0428     3.2629   5.223    <0.01 ***   ## ts_P1:P5 == 0   25.4765     3.2629   7.808    <0.01 ***   ## ts_P1:P6 == 0  -21.9372     3.2629  -6.723    <0.01 ***   ## ts_P2:P1 == 0   -9.7214     3.2629  -2.979   0.1928       ## ts_P2:P2 == 0    7.0899     4.5249   1.567   0.9773      }"},{"path":"/reference/grover.rcb.subsample.html","id":null,"dir":"Reference","previous_headings":"","what":"Rice RCB with subsamples — grover.rcb.subsample","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"experiment rice 9 fertilizer treatments 4 blocks,   4 hills per plot.","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"","code":"data(\"grover.rcb.subsample\")"},{"path":"/reference/grover.rcb.subsample.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"data frame 144 observations following 4 variables. tiller number tillers trt treatment factor block block factor unit subsample unit","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"experiment rice 9 fertilizer treatments 4 blocks,   4 hills per plot. response variable tiller count (per hill).   hills sampling units.","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"Grover, Deepak & Lajpat Rai (2010).   Experimental Designing Data Analysis Agriculture Biology.   Agrotech Publishing Academy. Page 85.   https://archive.org/details/expldesnanddatanalinagblg00023","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"None.","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"","code":"if (FALSE) {   data(grover.rcb.subsample)   # Fixed-effects ANOVA. Matches Grover page 86.   anova(aov(tiller ~ block + trt + block:trt, data=grover.rcb.subsample))   ## Response: tiller   ##            Df Sum Sq Mean Sq F value  Pr(>F)       ## block       3    930  310.01  3.6918 0.01415 *     ## trt         8  11816 1477.00 17.5891 < 2e-16 ***   ## block:trt  24   4721  196.71  2.3425 0.00158 **    ## Residuals 108   9069   83.97                     }"},{"path":"/reference/gumpertz.pepper.html","id":null,"dir":"Reference","previous_headings":"","what":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"Phytophtera disease incidence pepper field","code":""},{"path":"/reference/gumpertz.pepper.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"data frame 800 observations following 6 variables. field field factor, 2 levels row x ordinate quadrat y ordinate disease presence (Y) absence (N) disease water soil moisture percent leaf leaf assay count","code":""},{"path":"/reference/gumpertz.pepper.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"field 20 rows 20 quadrates, 2 3 bell pepper plants   per plot.  plant wilted, dead, lesions,   Phytophthora disease considered present plot.    soil pathogen load assayed number leaf disks colonized   five.  field 2, pattern disease presence appears   follow soil water content.  field 1, obvious trends   present. Gumpertz et al. model presence disease  using soil moisture   leaf assay covariates, using disease presence neighboring   plots covariates autologistic model. Used permission Marcia Gumpertz.  Research funded USDA.","code":""},{"path":"/reference/gumpertz.pepper.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"Marcia L. Gumpertz; Jonathan M. Graham; Jean B. Ristaino (1997).   Autologistic Model Spatial Pattern Phytophthora Epidemic   Bell Pepper: Effects Soil Variables Disease Presence.   Journal Agricultural, Biological, Environmental     Statistics, Vol. 2, . 2., pp. 131-156.","code":""},{"path":"/reference/gumpertz.pepper.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"","code":"if (FALSE) {  library(agridat) data(gumpertz.pepper) dat <- gumpertz.pepper  # Gumpertz deletes two outliers dat[ dat$field ==\"F1\" & dat$row==20 & dat$quadrat==10, 'water'] <- NA dat[ dat$field ==\"F2\" & dat$row==5 & dat$quadrat==4, 'water'] <- NA  # Horizontal flip dat <- transform(dat, row=21-row)  # Disease presence.  Gumpertz fig 1a, 2a. libs(desplot) grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\")) desplot(dat, disease ~ row*quadrat|field,         col.regions=c('white','black'), aspect=1, # uncertain aspect         main=\"gumpertz.pepper disease presence\", )  # Soil water.  Gumpertz fig 1b, 2b desplot(dat, water ~ row*quadrat|field,         col.regions=grays(5), aspect=1, # uncertain aspect         at=c(5,7.5,10,12.5,15,18),         main=\"gumpertz.pepper soil moisture\")  # Leaf assay.  Gumpertz fig 1c, 2c desplot(dat, leaf ~ row*quadrat|field,         col.regions=grays(6),         at=c(0,1,2,3,4,5,6)-.5, aspect=1, # uncertain aspect         main=\"gumpertz.pepper leaf assay\", )   # Use the inner 16x16 grid of plots in field 2 dat2 <- droplevels(subset(dat, field==\"F2\" & !is.na(water) &                           row > 2 & row < 19 & quadrat > 2 & quadrat < 19))  m21 <- glm(disease ~ water + leaf, data=dat2, family=binomial) coef(m21) # These match Gumpertz et al table 4, model 1 ## (Intercept)       water        leaf ##  -9.1019623   0.7059993   0.4603931 dat2$res21 <- resid(m21) if(0){   libs(desplot)   desplot(dat2, res21 ~ row*quadrat,           main=\"gumpertz.pepper field 2, model 1 residuals\")   # Still shows obvious trends.  Gumpertz et al add spatial covariates for   # neighboring plots, but with only minor improvement in misclassification }  }"},{"path":"/reference/hadasch.lettuce.html","id":null,"dir":"Reference","previous_headings":"","what":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"Lettuce resistance downy mildew resistance (marker data).","code":""},{"path":"/reference/hadasch.lettuce.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"","code":"data(\"hadasch.lettuce\")"},{"path":"/reference/hadasch.lettuce.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"data frame 703 observations following 4 variables. loc locations gen genotype rep replicate dmr downy mildew resistance","code":""},{"path":"/reference/hadasch.lettuce.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"biparental cross 95 recombinant inbred lines \"Salinas 88\" (susceptible) \"La Brillante\" (highly resistant downy mildew). 89 RILs evaluated field experiments performed 2010 2011 near Salinas, California. loc 2 3 rep RCB design. approximately 30 plants per plot. Plots scored 0 (disease) 5 (severe disease). authors used following model first-stage analysis compute adjusted means genotype: y = loc + gen + gen:loc + block:loc + error gen fixed terms random.  adjusted means used response second stage: mn = 1 + Zu + error Z design matrix marker effects. error term fixed covariance matrix R first stage. Genotyping performed 95 SNPs 205 amplified fragment length polymporphism markers marker matrix M (89×300) provided. biallelic marker M(iw) ith genotype wth marker alleles A1 (.e. reference allele) A2 coded 1 A1,A1, -1 A2,A2 0 A1,A2 A2,A2. electronic version lettuce data licensed CC-4 downloaded 20 Feb 2021.  https://figshare.com/articles/dataset/Lettuce_trial_phenotypic_and_marker_data_/8299493","code":""},{"path":"/reference/hadasch.lettuce.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"Hadasch, S., . Simko, R. J. Hayes, J. O. Ogutu, H.P. Piepho (2016).   Comparing predictive abilities phenotypic   marker-assisted selection methods biparental lettuce population.   Plant Genome 9.   https://doi.org/10.3835/plantgenome2015.03.0014","code":""},{"path":"/reference/hadasch.lettuce.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"Hayes, R. J., Galeano, C. H., Luo, Y., Antonise, R., & Simko, . (2014).   Inheritance Decay Fresh-cut Lettuce Recombinant Inbred Line Population \"Salinas 88\" × \"La Brillante\".   J. Amer. Soc. Hort. Sci., 139(4), 388-398.   https://doi.org/10.21273/JASHS.139.4.388","code":""},{"path":"/reference/hadasch.lettuce.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"","code":"if (FALSE) {   library(agridat)   data(hadasch.lettuce)   data(hadasch.lettuce.markers)   dat <- hadasch.lettuce   datm <- hadasch.lettuce.markers      libs(agridat)   # loc 1 has 2 reps, loc 3 has higher dmr   dotplot(dmr ~ factor(gen)|factor(loc), dat,         group=rep, layout=c(1,3),         main=\"hadasch.lettuce\")    # kinship matrix   # head( tcrossprod(as.matrix(datm[,-1])) )    if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     dat <- transform(dat, loc=factor(loc), gen=factor(gen), rep=factor(rep))     m1 <- asreml(dmr ~ 1 + gen, data=dat,                  random = ~ loc + gen:loc + rep:loc)     p1 <- predict(m1, classify=\"gen\")$pvals   }      libs(sommer)   m2 <- mmer(dmr ~ 0 + gen, data=dat,              random = ~ loc + gen:loc + rep:loc)   p2 <- coef(m2)   head(p1)   head(p2)  }"},{"path":"/reference/hanks.sprinkler.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"Three wheat varieties planted 3 blocks, line sprinkler   crossing whole plots.","code":""},{"path":"/reference/hanks.sprinkler.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"data frame 108 observations following 7 variables. block block row row subplot column gen genotype, 3 levels yield yield (tons/ha) irr irrigation level, 1..6 dir direction sprinkler, N/S","code":""},{"path":"/reference/hanks.sprinkler.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"line-source sprinkler placed middle experiment   (subplots 6 7).  Subplots closest sprinkler receive   irrigation.  Subplots far sprinkler (near edges)   lowest yields. One data value modified original (following   example authors).","code":""},{"path":"/reference/hanks.sprinkler.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"Hanks, R.J., Sisson, D.V., Hurst, R.L, Hubbard K.G. (1980).   Statistical Analysis Results Irrigation Experiments Using   Line-Source Sprinkler System.   Soil Science Society America Journal, 44, 886-888.   https://doi.org/10.2136/sssaj1980.03615995004400040048x","code":""},{"path":"/reference/hanks.sprinkler.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"Johnson, D. E., Chaudhuri, U. N., Kanemasu, E. T. (1983).   Statistical Analysis Line-Source Sprinkler Irrigation Experiments   Nonrandomized Experiments Using Multivariate Methods.   Soil Science Society American Journal, 47, 309-312. Stroup, W. W. (1989).   Use Mixed Model Procedure Analyze Spatially Correlated Data:   Example Applied Line-Source Sprinkler Irrigation Experiment.   Applications Mixed Models Agriculture Related     Disciplines, Southern Cooperative Series Bulletin . 343, 104-122. SAS Stat User's Guide.   https://support.sas.com/documentation/cdl/en/statug/63347/HTML/default/viewer.htm#statug_mixed_sect038.htm","code":""},{"path":"/reference/hanks.sprinkler.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"","code":"if (FALSE) {      library(agridat)   data(hanks.sprinkler)   dat <- hanks.sprinkler    # The line sprinkler is vertical between subplots 6 & 7   libs(desplot)   desplot(dat, yield~subplot*row,           out1=block, out2=irr, cex=1, # aspect unknown           num=gen, main=\"hanks.sprinkler\")         libs(lattice)   xyplot(yield~subplot|block, dat, type=c('b'), group=gen,          layout=c(1,3), auto.key=TRUE,          main=\"hanks.sprinkler\",          panel=function(x,y,...){            panel.xyplot(x,y,...)            panel.abline(v=6.5, col='wheat')          })       ## This is the model from the SAS documentation   ## proc mixed;   ## class block gen dir irr;   ## model yield = gen|dir|irr@2;   ## random block block*dir block*irr;   ## repeated / type=toep(4) sub=block*gen r;      if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)            dat <- transform(dat, subf=factor(subplot),                      irrf=factor(irr))     dat <- dat[order(dat$block, dat$gen, dat$subplot),]          # In asreml3, we can specify corb(subf, 3)     # In asreml4, only corb(subf, 1) runs.  corb(subf, 3) says:     # Correlation structure is not positive definite     m1 <- asreml(yield ~ gen + dir + irrf + gen:dir + gen:irrf + dir:irrf,                  data=dat,                  random= ~ block + block:dir + block:irrf,                  resid = ~ block:gen:corb(subf, 3))          lucid::vc(m1)     ##                   effect component std.error z.ratio bound      ##                    block  0.2195     0.2378    0.92      P 0.5     ##                block:dir  0.01769    0.03156   0.56      P 0       ##               block:irrf  0.03539    0.0362    0.98      P 0.1     ##         block:gen:subf!R  0.2851     0.05088   5.6       P 0       ## block:gen:subf!subf!cor1  0.02829    0.1142    0.25      U 0.9     ## block:gen:subf!subf!cor2  0.004997   0.1278    0.039     U 9.5     ## block:gen:subf!subf!cor3 -0.3245     0.09044  -3.6       U 0.1          }  }"},{"path":"/reference/hanover.whitepine.html","id":null,"dir":"Reference","previous_headings":"","what":"Mating crosses of white pine trees — hanover.whitepine","title":"Mating crosses of white pine trees — hanover.whitepine","text":"Mating crosses white pine trees","code":""},{"path":"/reference/hanover.whitepine.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Mating crosses of white pine trees — hanover.whitepine","text":"","code":"data(\"hanover.whitepine\")"},{"path":"/reference/hanover.whitepine.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Mating crosses of white pine trees — hanover.whitepine","text":"data frame 112 observations following 4 variables. rep replicate female female parent male male parent length epicotyl length, cm","code":""},{"path":"/reference/hanover.whitepine.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Mating crosses of white pine trees — hanover.whitepine","text":"Four male (pollen parent) White Pine trees mated seven female   trees 2654 progeny grown four replications, one plot per   mating replication.  Parent trees sourced Idaho,   USA.  data plot means epicotyl length. Becker (1984) used data demonstrate calculation   heritability.","code":""},{"path":"/reference/hanover.whitepine.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Mating crosses of white pine trees — hanover.whitepine","text":"Hanover, James W Barnes, Burton V. (1962).   Heritability height growth year-old western white pine.   Proc Forest Genet Workshop. 22, 71--76. Walter . Becker (1984).   Manual Quantitative Genetics, 4th ed. Page 83.","code":""},{"path":"/reference/hanover.whitepine.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Mating crosses of white pine trees — hanover.whitepine","text":"None","code":""},{"path":"/reference/hanover.whitepine.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Mating crosses of white pine trees — hanover.whitepine","text":"","code":"if (FALSE) {      library(agridat)   data(hanover.whitepine)   dat <- hanover.whitepine    libs(lattice)   # Relatively high male-female interaction in growth comared   # to additive gene action. Response is more consistent within   # male progeny than female progeny.   # with(dat, interaction.plot(female, male, length))   # with(dat, interaction.plot(male, female, length))   bwplot(length ~ male|female, data=dat,          main=\"hanover.whitepine - length for male:female crosses\",          xlab=\"Male parent\", ylab=\"Epicotyl length\")      # Progeny sums match Becker p 83   sum(dat$length) # 380.58   aggregate(length ~  female + male, data=dat, FUN=sum)      # Sum of squares matches Becker p 85   m1 <- aov(length ~ rep + male + female + male:female, data=dat)   anova(m1)      # Variance components match Becker p. 85   libs(lme4)   libs(lucid)   m2 <- lmer(length ~ (1|rep) + (1|male) + (1|female) + (1|male:female), data=dat)   #as.data.frame(lme4::VarCorr(m2))   vc(m2)   ##         grp        var1 var2    vcov  sdcor   ## male:female (Intercept) <NA> 0.1369  0.3699   ##      female (Intercept) <NA> 0.02094 0.1447   ##        male (Intercept) <NA> 0.1204  0.3469   ##         rep (Intercept) <NA> 0.01453 0.1205   ##    Residual        <NA> <NA> 0.2004  0.4477      # Becker used this value for variability between individuals, within plot   s2w <- 1.109      # Calculating heritability for individual trees   s2m <- .120   s2f <- .0209   s2mf <- .137   vp <- s2m + s2f + s2mf + s2w  # variability of phenotypes = 1.3869   4*s2m / vp # heritability male 0.346   4*s2f / vp # heritability female 0.06   2*(s2m+s2f)/vp # heritability male+female .203   # As shown in the boxplot, heritability is stronger through the   # males than through the females. }"},{"path":"/reference/hansen.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Multi-year uniformity trial Denmark","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"","code":"data(\"hansen.multi.uniformity\")"},{"path":"/reference/hansen.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"data frame 662 observations following 6 variables. field field name year year crop crop yield yield (percent mean) row row col column","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Uniformity trials carried 1906 1911 two fields   Aarslev, Denmark. yield values expressed percent mean   yield year. scale map Hansen shows \"Alen\" scale. See   https://en.wikipedia.org/wiki/Alen_(unit_of_length) Danish alen =   62.77 cm. Field A2: Based map, field approximately 60 alen x 70 alen (38 m x   44 m), orientation field clear.  Plots   probably circa 7.4 m side. Divided 30 plots -- 6 strips 5.  crops grown : 1907   oats, 1908 rye, 1909 barley, 1910 mangolds, 1911 barley. Sanders said: appeared two printer errors paper.   field A2 yields given 1908 add 3010 instead 3000:   reference Fig. 6 given seemed indicate   excess lay row 3 eventually decided reduce plots 3c   96 3f 84. Field E2: Field approximately 120 alen x 200 alen (76m x 125m).  Plots   probably circa 8-9m side. Divided 128 plots: 16 strips 8.  Crops grown: 1906 oats, 1907   barley, 1908 seeds, 1909 rye. Sanders said, remarkable oscillation fertility across   field E2 one direction, 1st, 3rd, ...  15th strips (columns)   consistently giving much higher yields 2nd, 4th, ... 16th   strips (columns). fact four years odd numbered strips   gave total yield 27,817, compared 23,383 even   numbered strips.  oscillation apparently arose legacy   old practice ploughing high ridges: tops ridges   exhibited greater fertility borders furrows,   soil worked former latter field leveled   . meant site old furrows good   depth rich soil, whilst shallow ridges   . strips arranged cover site furrow   ridge alternately, result noted .  Sanders:   order escape variation, table condensed taking 2   strips together (new strips included whole one   old \"lands\") making 8 8 square. Sanders said: field E2 1908, column 10 sums 791 instead   786 shown: reference Fig. 13 indicated yield   plot 10g probably 92 instead 97. version data package uses changes suggested Sanders. Data typed K.Wright.","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Hansen, Niels Anton (1914).   Prøvedyrkning paa Forsøgsstationen ved Aarslev.   Page 557 field A2. Page 562 field E2.   https://dca.au.dk/publikationer/historiske/planteavl","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Eden, T. E. J. Maskell. (1928).   influence soil heterogeneity growth yield   successive crops.   Journal Agricultural Science, 18, 163-185.   https://archive.org/stream/.ernet.dli.2015.25895/2015.25895.Journal--Agricultural-Science-Vol-xviii-1928#page/n175 Sanders, H. G. 1930.   note value uniformity trials subsequent experiments.   Journal Agricultural Science. 20, 63-73.   https://dx.doi.org/10.1017/S0021859600088626   https://repository.rothamsted.ac.uk/item/97039/-note---value--uniformity-trials--subsequent-experiments","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(hansen.multi.uniformity)   dat <- hansen.multi.uniformity      # Field A2: Average across years   libs(dplyr,reshape2)   #dat     # Field E2: Match column totals   #dat     # Heatmaps. Aspect ratio is an educated guess   libs(dplyr, desplot)   dat <- dat    dat    dat     # Look at correlation of experimental unit plots across years   libs(dplyr, reshape2, lattice)   dat <- mutate(dat, plot=paste(row,col))   mat1 <- filter(dat, field==\"A2\")    splom(mat1, main=\"hansen.multi.uniformity field A2\")   mat2 <- filter(dat, field==\"E2\")    splom(mat2, main=\"hansen.multi.uniformity field A2\")  }"},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Uniformity trial sugar beet Russia.","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"","code":"data(\"haritonenko.sugarbeet.uniformity\")"},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"data frame 416 observations following 3 variables. row Row ordinate col Column ordinate yield Yield pfund per plot","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Roemer (1920) says: Haritonenko (36), experiment Ivanovskoye Agricultural   Experimental Station, Novgorod Governorate.   test area 5.68 ha 416 sections (plots) 136.5 square   meters.   Row 1 significantly less soil three rows. Based heatmap, 'Row 1' left column. Roemer p. 63 says: Table 4: Root yield pfund 30 quadratfaden (1.33 x   22.5). use 1 faden = 7 feet, :   (1.33 faden * 7 feet) * (22.5 faden * 7 feet) * 416 plots = 609991 sq   feet = 5.68 hectares, matches experiment description. 'pfund' (Germany pound) today defined 500g, 1920 might   different, perhaps 467g??? Field width: 4 plots * (22.5 faden * 7 feet/faden) = 630 feet. Field length: 104 plots * (1.33 faden * 7 feet/faden) = 968 feet. Note: Cochran says plots 8 x 135 ft. seems based 1   faden = 6 feet, match total area 5.68 ha. Note: name Haritonenko sometimes translated English :   Pavel Kharitonenko. original name Russian : Павел Иванович   Харитоненко . data typed K.Wright Roemer (1920), table 4, p. 63.","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Haritonenko, Pavlo.   Neue Präzisionsmethoden auf den Versuchsfeldern.   Arbeiten der landw. Versuchsstation Iwanowskoje 1904-06, S. 159.   Russian German summary.","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180. Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"","code":"if (FALSE) {      library(agridat)   data(haritonenko.sugarbeet.uniformity)   dat <- haritonenko.sugarbeet.uniformity    mean(dat$yield) # 615.68. # Roemer page 37 says 617      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(104*1.33*7)/(4*22.5*7), ticks=TRUE,           main=\"haritonenko.sugarbeet.uniformity\")    }"},{"path":"/reference/harris.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"Uniformity trials multiple crops, Huntley Field Station,   Montana, 1911-1925.","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"data frame 1058 observations following 5 variables. series series (field coordinate) plot plot number (field ordinate) year year, 1911-1925 crop crop yield yield per plot (pounds)","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"yields given Harris (1920) (Practical universality...) given quarter-plots. yields given Harris (1920) (Permanence ...) yields given Harris (1928) given single plots. Field width: 2 plots * 317 ft  + 5 feet alley = 639 feet Field length: 23 plots * 23.3 feet = 536 feet yields given pound per plot.   original data Harris (1920) 1911 sugarbeet yields   tons/ac,  (Harris 1920, table 3 footnote), converted   pounds/plot purpose dataset. Harris (1928) shows map location page 16. Harris (1920): 1911: spring 1911 field laid 46 plots,   measuring 23.5 317 feet containing 0.17 acre, arranged   two parallel series 23 plots . two series plots   separated merely temporary irrigation ditch. 1911   planted sugar beets. 1912: spring 1912 seeded   alfalfa, one cutting harvested year. stand remained   ground 1913 1914, entire field   fall-plowed. 1913: Three cuttings made, third cutting   lost heavy wind scattered mixed crop   weighings various plots made. first cutting,   designated alfalfa , made plots one-half original   size. second cutting harvested plots one-quarter   original size. 1914: first second cuttings 1914 weighed   plots one-quarter original size--, 0.0425-acre plots--  third cutting recorded plots one-third original   size. furnish data alfalfa , II, III 1914.   Total yields first second cuttings 1913 1914   first, second, third cuttings 1914 also considered. 1915: Ear corn. 1916: Ear corn. 1917: fields planted oats, records made grain,   straw, total yield. 1918: Silage corn grown. 1919: land produced crop barley. 1920: Silage corn 1921 Alfalfa 1922 Alfalfa, cutting 3 1923 Alfalfa, cutting 1 3 1914 Alfalfa, cutting 2 3 Harris (1928): southeast corner Series II, east series,   80 feet main canal, southwest corner Series   III 50 feet Ouster Coulee. main project canal   carries normally irrigation season 400 second-feet   water. water surface canal 4 feet high   corner field. evident surface conditions, well   borings made canal field,   extensive seepage canal subsoil field.   volume seepage larger recent years   earlier years cropping experiments, probably   canal bank worn away internal erosion, exposing stratum   sandy subsoil underlies canal part field. Whereas earlier crops Series II better alfalfa, Series   III better alfalfa later period.  writers feel   inclined suggest earlier experiments height   water table harmful effect upon deep-rooted crop   alfalfa.  quite possible drier periods higher   water table actually favored alfalfa growth Series II. higher   water tables recent years probably deleterious   influence, especially marked Series II,   water apparently comes nearer surface Series III.","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"Harris, J Arthur Scofield, CS. (1920).   Permanence differences plats experimental field.   Jour. Agr. Res, 20, 335-356.   https://naldc.nal.usda.gov/catalog/IND43966236   https://www.google.com/books/edition/Journal_of_the_American_Society_of_Agron/Zwz0AAAAMAAJ?hl=en&gbpv=1&pg=PA257   data 1911-1919. Harris, J Arthur Scofield, CS. (1928).   studies permanence differences plots   experimental field.   Jour. Agr. Res, 36, 15--40.   https://naldc.nal.usda.gov/catalog/IND43967538   data 1920-1925.","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"","code":"if (FALSE) { library(agridat)  data(harris.multi.uniformity) dat <- harris.multi.uniformity # Combine year/crop into 'harvest' dat <- transform(dat, harv = factor(paste0(year,\".\",crop)))  # Average yields. Harris 1928, table 2. aggregate(yield~harv, dat, mean)  # Corrgram libs(reshape2,corrgram) mat <- acast(dat, series+plot~harv, value.var='yield') corrgram(mat, main=\"harris.multi.uniformity - correlation of crop yields\")   # Compare to Harris 1928, table 4.  More positive than negative correlations. # densityplot(as.vector(cor(mat)), xlab=\"correlations\", #             main=\"harris.multi.uniformity\")     # Standardize yields for each year mats <- scale(mat) # Melt and re-name columns so we can make field maps.  Obvious spatial # patterns that persist over years d2 <- melt(mats) names(d2) <- c('ord','harv','yield') d2$series <- as.numeric(substring(d2$ord,1,1)) d2$plot <- as.numeric(substring(d2$ord,3))  # Series 2 is on the east side, so switch 2 and 3 for correct plotting d2$xord <- 5 - dat$series # Note that for alfalfa, higher-yielding plots in 1912-1914 were # lower-yielding in 1922-1923. # Heatmaps for individual year/harvest combinations libs(desplot) desplot(d2, yield ~ xord*plot|harv,         aspect=536/639, flip=TRUE, # true aspect         main=\"harris.multi.uniformity\")  # Crude fertility map by averaging across years shows probable # sub-surface water effects agg <- aggregate(yield ~ xord + plot, data=d2, mean) desplot(agg, yield ~ xord + plot,         aspect=536/639, # true aspect         main=\"harris.multi.uniformity fertility\")  }"},{"path":"/reference/harris.wateruse.html","id":null,"dir":"Reference","previous_headings":"","what":"Water use by horticultural trees — harris.wateruse","title":"Water use by horticultural trees — harris.wateruse","text":"Water use horticultural trees","code":""},{"path":"/reference/harris.wateruse.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Water use by horticultural trees — harris.wateruse","text":"data frame 1040 observations following 6 variables. species species factor, 2 levels age age factor, 2 levels tree tree factor, 40 (non-consecutive) levels day day, numeric water water use, numeric","code":""},{"path":"/reference/harris.wateruse.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Water use by horticultural trees — harris.wateruse","text":"Ten trees four groups (two species, two ages)   assessed water usage, approximately every five days. Missing values included benefit asreml, needs   'balanced' data set due kronecker-like syntax R matrix. Used permission Roger Harris Virginia Polytechnic.","code":""},{"path":"/reference/harris.wateruse.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Water use by horticultural trees — harris.wateruse","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil Sciences.   CRC Press.  Page 512.","code":""},{"path":"/reference/harris.wateruse.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Water use by horticultural trees — harris.wateruse","text":"","code":"if (FALSE) {    library(agridat)   data(harris.wateruse)   dat <- harris.wateruse    # Compare to Schabenberger & Pierce, fig 7.23   libs(latticeExtra)   useOuterStrips(xyplot(water ~ day|species*age,dat, as.table=TRUE,                         group=tree, type=c('p','smooth'),                         main=\"harris.wateruse 2 species, 2 ages (10 trees each)\"))     # Note that measurements on day 268 are all below the trend line and   # thus considered outliers.  Delete them.   dat <- subset(dat, day!=268)     # Schabenberger figure 7.24   xyplot(water ~ day|tree,dat, subset=age==\"A2\" & species==\"S2\",          as.table=TRUE, type=c('p','smooth'),          ylab=\"Water use profiles of individual trees\",          main=\"harris.wateruse (Age 2, Species 2)\")      # Rescale day for nicer output, and convergence issues, add quadratic term   dat <- transform(dat, ti=day/100)   dat <- transform(dat, ti2=ti*ti)    # Start with a subgroup: age 2, species 2   d22 <- droplevels(subset(dat, age==\"A2\" & species==\"S2\"))    # ----- Model 1, for subgroup A2,S2    # First, a fixed quadratic that is common to all trees, plus   # a random quadratic deviation for each tree.      ## Schabenberger, Output 7.26   ## proc mixed;   ##   class tree;   ##   model water = ti ti*ti / s;   ##   random intercept ti ti*ti/subject=tree;    libs(nlme,lucid)   ## We use pdDiag() to get uncorrelated random effects   m1n <- lme(water ~ 1 + ti + ti2, data=d22, na.action=na.omit,              random = list(tree=pdDiag(~1+ti+ti2)))   # lucid::vc(m1n)   ##       effect variance    stddev   ##  (Intercept)   0.2691 0.5188   ##           ti   0      0.0000144   ##          ti2   0      0.0000039   ##     Residual   0.1472 0.3837     # Various other models with lme4 & asreml        libs(lme4, lucid)   m1l <- lmer(water ~ 1 + ti + ti2 + (1|tree) +                 (0+ti|tree) + (0+ti2|tree), data=d22)   # lucid::vc(m1l)   ##      grp        var1 var2   vcov  sdcor   ##     tree (Intercept) <NA> 0.2691 0.5188   ##   tree.1          ti <NA> 0      0   ##   tree.2         ti2 <NA> 0      0   ## Residual        <NA> <NA> 0.1472 0.3837     # Once the overall quadratic trend has been removed, there is not   # too much evidence for consecutive observations being correlated   ## d22r <- subset(d22, !is.na(water))   ## d22r$res <- resid(m1n)   ## xyplot(res ~ day|tree,d22r,   ##        as.table=TRUE, type=c('p','smooth'),   ##        ylab=\"residual\",   ##        main=\"harris.wateruse - Residuals of individual trees\")   ## op <- par(mfrow=c(4,3))   ## tapply(d22r$res, d22r$tree, acf)   ## par(op)      # ----- Model 2, add correlation of consecutive measurements      ## Schabenberger (page 516) adds correlation.   ## Note how the fixed quadratic model is on the \"ti = day/100\" scale   ## and the correlated observations are on the \"day\" scale.  The   ## only impact this has on the fitted model is to increase the   ## correlation parameter by a factor of 100, which was likely   ## done to get better convergence.      ## proc mixed data=age2sp2;   ##   class tree;   ##   model water = ti ti*ti / s ;   ##   random intercept /subject=tree s;   ##   repeated /subject=tree type=sp(exp)(day);    ## Same as SAS, use ti for quadratic, day for correlation   m2l <- lme(water ~ 1 + ti + ti2, data=d22,              random = ~ 1|tree,              cor = corExp(form=~ day|tree),              na.action=na.omit)   m2l # Match output 7.27.  Same fixef, ranef, variances, exp corr    # lucid::vc(m2l)   ##       effect variance stddev   ##  (Intercept)   0.2656 0.5154   ##     Residual   0.1541 0.3926      # ---      ## Now use asreml.  When I tried rcov=~tree:exp(ti),   ## the estimated parameter value was on the 'boundary', i.e. 0.   ## Changing rcov to the 'day' scale produced a sensible estimate   ## that matched SAS.   ## Note: SAS and asreml use different parameterizations for the correlation   ## SAS uses exp(-d/phi) and asreml uses phi^d.   ## SAS reports 3.79, asreml reports 0.77, and exp(-1/3.7945) = 0.7683274   ## Note: normally a quadratic would be included as 'pol(day,2)'    if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     d22 <- d22[order(d22$tree, d22$day),]     m2a <- asreml(water ~ 1 + ti + ti2,                   data=d22,                   random = ~ tree,                   residual=~tree:exp(day))     lucid::vc(m2a)     ##         effect component std.error z.ratio constr     ##  tree!tree.var    0.2656   0.1301      2      pos     ##     R!variance    0.1541   0.01611     9.6    pos     ##      R!day.pow    0.7683   0.04191    18    uncon   }          # ----- Model 3. Full model for all species/ages.  Schabenberger p. 518      ## /* Continuous AR(1) autocorrelations included      */   ## proc mixed data=wateruse;   ##   class age species tree;   ##   model water = age*species age*species*ti age*species*ti*ti / noint s;   ##   random intercept ti / subject=age*species*tree s;   ##   repeated / subject=age*species*tree type=sp(exp)(day);         m3l <- lme(water ~ 0 + age:species + age:species:ti + age:species:ti2,              data=dat, na.action=na.omit,              random = list(tree=pdDiag(~1+ti)),              cor = corExp(form=~ day|tree) )      m3l # Match Schabenberger output 7.27.  Same fixef, ranef, variances, exp corr    # lucid::vc(m3l)   ##       effect variance stddev   ##  (Intercept)  0.1549  0.3936   ##           ti  0.02785 0.1669   ##     Residual  0.16    0.4    # --- asreml        if(require(\"asreml\", quietly=TRUE)){     dat <- dat[order(dat$tree,dat$day),]     m3a <- asreml(water ~ 0 + age:species + age:species:ti + age:species:ti2,                   data=dat,                   random = ~ age:species:tree + age:species:tree:ti,                   residual = ~ tree:exp(day) )          # lucid::vc(m3a) # Note: day.pow = .8091 = exp(-1/4.7217)     ##                       effect component std.error z.ratio constr     ##     age:species:tree!age.var   0.1549   0.07192      2.2    pos     ##  age:species:tree:ti!age.var   0.02785  0.01343      2.1    pos     ##                   R!variance   0.16     0.008917    18      pos     ##                    R!day.pow   0.8091   0.01581     51    uncon   }    }"},{"path":"/reference/harrison.priors.html","id":null,"dir":"Reference","previous_headings":"","what":"Ranges of analytes in soybean from other authors — harrison.priors","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Ranges analytes soybean authors","code":""},{"path":"/reference/harrison.priors.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"data frame 80 observations following 5 variables. source Source document substance Analyte substance min minimum amount (numeric) max maximum analyte amount (numeric) number number substances","code":""},{"path":"/reference/harrison.priors.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Harrison et al. show construct informative Bayesian prior   previously-published ranges concentration several   analytes. units daidzein, genistein, glycitein micrograms per   gram. raffinose stachyose units converted common 'percent'   scale. author names 'source' variable shortened forms   citations supplemental information Harrison et al.","code":""},{"path":"/reference/harrison.priors.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Jay M. Harrison, Matthew L. Breeze, Kristina H. Berman, George   G. Harrigan. 2013.   Bayesian statistical approaches compositional analyses transgenic   crops 2. Application validation informative prior distributions.   Regulatory Toxicology Pharmacology, 65, 251-258.   https://doi.org/10.1016/j.yrtph.2012.12.002 Data retrieved Supplemental Information source.","code":""},{"path":"/reference/harrison.priors.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Jay M. Harrison, Derek Culp, George G. Harrigan. 2013.   Bayesian MCMC analyses regulatory assessments safety food composition   Proceedings 24th Conference Applied Statistics     Agriculture (2012).","code":""},{"path":"/reference/harrison.priors.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"","code":"if (FALSE) {  library(agridat) data(harrison.priors) dat <- harrison.priors  d1 <- subset(dat, substance==\"daidzein\")  # Stack the data to 'tall' format and calculate empirical cdf d1t <- with(d1, data.frame(xx = c(min, max), yy=c(1/(number+1), number/(number+1))))  # Harrison 2012 Example 4: Common prior distribution # Harrison uses the minimum and maximum levels of daidzein from previous # studies as the first and last order statistics of a lognormal # distribution, and finds the best-fit lognormal distribution.  m0 <- mean(log(d1t$xx)) # 6.37 s0 <- sd(log(d1t$xx)) # .833 mod <- nls(yy ~ plnorm(xx, meanlog, sdlog), data=d1t,            start=list(meanlog=m0, sdlog=s0)) coef(mod) # Matches Harrison 2012 ##   meanlog     sdlog ## 6.4187829 0.6081558  plot(yy~xx, data=d1t, xlim=c(0,2000), ylim=c(0,1),      main=\"harrison.priors - Common prior\", xlab=\"daidzein level\", ylab=\"CDF\") mlog <- coef(mod)[1] # 6.4 slog <- coef(mod)[2] # .61 xvals <- seq(0, 2000, length=100) lines(xvals, plnorm(xvals, meanlog=mlog, sdlog=slog))   d1a <- d1 d1a$source <- as.character(d1a$source) d1a[19,'source'] <- \"(All)\" # Add a blank row for the densitystrip d1 libs(latticeExtra) # Plot the range for each source, a density curve (with arbitary # vertical scale) for the common prior distribution, and a density # strip by stacking the individual bands and using transparency segplot(factor(source) ~ min+max, d1a,         main=\"harrison.priors\",xlab=\"daidzein level\",ylab=\"source\") +   xyplot(5000*dlnorm(xvals, mlog, slog)~xvals, type='l') +   segplot(factor(rep(1,18)) ~ min+max, d1, 4, level=d1$number,           col.regions=\"gray20\", alpha=.1)  }"},{"path":"/reference/hartman.tomato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tomato — hartman.tomato.uniformity","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"Uniformity trial tomato Indiana","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"","code":"data(\"hartman.tomato.uniformity\")"},{"path":"/reference/hartman.tomato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"data frame 384 observations following 3 variables. row row col column yield yield, pounds per plot","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"Grown Indiana 1941. column ordinates R package dataset quite exactly   field due presence roads. Plants spaced 3 feet apart rows 6 feet apart, 330 feet   long. row divided 3 sections 34 plants sparated   strips 12 feet long provide roadways vehicles. row divided 4-plant plots, 8 plots section   row one plant left guard end section. 49 plants missing 3072 total plants, ignored. Note, data given Table 1 Hartman 8-plant plots! Field width: 3 sections (34 plants * 3 feet) + 2 roads * 12 feet = 330 feet. Field length: 32 rows * 6 feet = 192 feet oriented page, plots , average, 330/12=27.5. feet wide, 6 feet tall. Discussion notes Hartman. Total yield 26001 pounds. Hartman says yield field   10.24 tons per acre, can verify: 26001 lb/field * (1/384 field/plot) * (1/(24*6) plot/ft2) * (43560 ft2/acre) * (1/2000 tons/lb) = 10.24 tons/acre rows top/bottom (north/south) intended guard rows,   yields similar rows, suggesting competition   rows exist. comparing varieties, 96*6 foot plots   work well.","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"J. D. Hartman E. C. Stair (1942).   Field Plot Technique Tomatoes.   Proceedings American Society Horticultural Science, 41,   315-320.   https://archive.org/details/.ernet.dli.2015.240678","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"None","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(hartman.tomato.uniformity) libs(desplot) desplot(hartman.tomato.uniformity, yield ~ col*row,          flip=TRUE, tick=TRUE, aspect=192/330, # true aspect         main=\"hartman.tomato.uniformity\")  }"},{"path":"/reference/harvey.lsmeans.html","id":null,"dir":"Reference","previous_headings":"","what":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"Average daily gain 65 steers 3 lines, 9 sires.","code":""},{"path":"/reference/harvey.lsmeans.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"","code":"data(\"harvey.lsmeans\")"},{"path":"/reference/harvey.lsmeans.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"data frame 65 observations following 7 variables. line line dam sire sire damage age class dam calf calf number weanage calf age weaning weight calf weight start feeding adg average daily gain","code":""},{"path":"/reference/harvey.lsmeans.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"average daily gain 'adg' 65 Hereford steers. calf age weaning initial weight beginning   test feeding also given. steers fed length time feed lot. assumed calf unique dam twins   repeat matings. Harvey (1960) one earliest papers presenting least squares   means (lsmeans).","code":""},{"path":"/reference/harvey.lsmeans.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"Harvey, Walter R. (1960).   Least-squares Analysis Data Unequal Subclass Numbers.   Technical Report ARS 20-8. USDA, Agricultural Research Service.   Page 101-102. Reprinted ARS H-4, 1975.   https://archive.org/details/leastsquaresanal04harv","code":""},{"path":"/reference/harvey.lsmeans.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"Also appears 'dmm' package 'harv101.df'  See package   vignette complete analysis data.","code":""},{"path":"/reference/harvey.lsmeans.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"","code":"if (FALSE) {  library(agridat) data(harvey.lsmeans) dat = harvey.lsmeans  libs(lattice) dotplot(adg ~ sire|line,dat,         main=\"harvey.lsmeans\", xlab=\"sire\", ylab=\"average daily gain\")  # Model suggested by Harvey on page 103 m0 <- lm(adg ~ 1 + line + sire + damage + line:damage + weanage +          weight, data=dat)  # Due to contrast settings, it can be hard to compare model coefficients to Harvey, # but note the slopes of the continuous covariates match Harvey p. 107, where his # b is weanage, d is weight # coef(m0) #       weanage       weight  #  -0.008154879  0.001970446    # A quick attempt to reproduce table 4 of Harvey, p. 109. Not right. # libs(emmeans) # emmeans(m0,c('line','sire','damage'))  }"},{"path":"/reference/harville.lamb.html","id":null,"dir":"Reference","previous_headings":"","what":"Birth weight of lambs from different lines/sires — harville.lamb","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"Birth weight lambs different lines/sires","code":""},{"path":"/reference/harville.lamb.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"","code":"data(\"harville.lamb\")"},{"path":"/reference/harville.lamb.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"data frame 62 observations following 4 variables. line genotype line number sire sire number damage dam age, class 1,2,3 weight lamb birth weight","code":""},{"path":"/reference/harville.lamb.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"Weight birth 62 lambs. 5 distinct lines. sires multiple lambs. dam one lamb. age dam category: 1 (1-2 years), 2 (2-3 years) 3 (3 years). Note: Jiang, gives data table 1.2, small error.   Jiang weight 9.0 sire 31, line 3, age 3. correct value 9.5.","code":""},{"path":"/reference/harville.lamb.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"David . Harville Alan P. Fenech (1985).   Confidence Intervals Variance Ratio, Heritability,   Unbalanced Mixed Linear Model.   Biometrics, 41, 137-152.   https://doi.org/10.2307/2530650","code":""},{"path":"/reference/harville.lamb.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"Jiming Jiang,   Linear Generalized Linear Mixed Models Applications. Table 1.2. Andre . Khuri, Linear Model Methodology. Table 11.5.  Page 368.   https://books.google.com/books?id=UfDvCAAAQBAJ&pg=PA164 Daniel Gianola, Keith Hammond.   Advances Statistical Methods Genetic Improvement   Livestock. Table 8.1, page 165.","code":""},{"path":"/reference/harville.lamb.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"","code":"if (FALSE) {  library(agridat) data(harville.lamb) dat <- harville.lamb dat <- transform(dat, line=factor(line), sire=factor(sire), damage=factor(damage))  library(lattice) bwplot(weight ~ line, dat,        main=\"harville.lamb\",        xlab=\"line\", ylab=\"birth weights\")  if(0){   libs(lme4, lucid)        m1 <- lmer(weight ~  -1 + line + damage + (1|sire), data=dat)   summary(m1)   vc(m1) # Khuri reports variances 0.5171, 2.9616   ##      grp        var1 var2   vcov  sdcor   ##     sire (Intercept) <NA> 0.5171 0.7191   ## Residual        <NA> <NA> 2.962  1.721    }  }"},{"path":"/reference/hayman.tobacco.html","id":null,"dir":"Reference","previous_headings":"","what":"Diallel cross of Aztec tobacco — hayman.tobacco","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"Diallel cross Aztec tobacco 2 reps","code":""},{"path":"/reference/hayman.tobacco.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"year year block block factor, 2 levels male male parent, 8 levels female female parent day mean flowering time (days)","code":""},{"path":"/reference/hayman.tobacco.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"Data collected 1951 (Hayman 1954a) 1952 (Hayman 1954b). year 8 varieties Aztec tobacco, Nicotiana rustica L.. cross/self represented 10 progeny, two plots 5   plants .  data mean flowering time per plot. Note, 1951 data published Hayman (1954a) Table 5 contain   \"10 times mean flowering time\".  data divided   10 comparable 1952 data. Hayman (1954b) says \"Table 2 lists...three characters diallel   cross Nicotiana rustica varieties repeated three years.\"   seems indicate varieties 1951   1952.  Calculating GCA effects separately 1951 1952   comparing estimates shows highly correlated.","code":""},{"path":"/reference/hayman.tobacco.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"B. . Hayman (1954a). Analysis Variance Diallel Tables.   Biometrics, 10, 235-244.  Table 5, page 241.   https://doi.org/10.2307/3001877 Hayman, B.. (1954b). theory analysis diallel crosses.   Genetics, 39, 789-809.  Table 3, page 805.   https://www.genetics.org/content/39/6/789.full.pdf","code":""},{"path":"/reference/hayman.tobacco.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"# 1951 data Mohring, Melchinger, Piepho. (2011).   REML-Based Diallel Analysis.   Crop Science, 51, 470-478. # 1952 data C. Clark Cockerham B. S. Weir. (1977).   Quadratic analyses reciprocal crosses.   Biometrics, 33, 187-203.  Appendix C. Andrea Onofri, Niccolo Terzaroli, Luigi Russi (2020).   Linear models diallel crosses: review R functions.   Theoretical Applied Genetics.   https://doi.org/10.1007/s00122-020-03716-8","code":""},{"path":"/reference/hayman.tobacco.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"","code":"if (FALSE) {      library(agridat)      # 1951 data.  Fit the first REML model of Mohring 2011 Supplement.     data(hayman.tobacco)   dat1 <- subset(hayman.tobacco, year==1951)       # Hayman's model   # dat1 <- subset(hayman.tobacco, year==1951)   # libs(lmDiallel)   # m1  <- lm.diallel(day ~ male+female, Block=block, data=dat1, fct=\"HAYMAN2\")   # anova(m1) # Similar to table 7 of Hayman 1954a   ## Response: day   ##                Df  Sum Sq Mean Sq F value    Pr(>F)       ## Block           1    1.42    1.42  0.3416   0.56100       ## Mean Dom. Dev.  1  307.97  307.97 73.8840 3.259e-12 ***   ## GCA             7 2777.17  396.74 95.1805 < 2.2e-16 ***   ## Dom. Dev.       7  341.53   48.79 11.7050 1.957e-09 ***   ## SCA            20  372.89   18.64  4.4729 2.560e-06 ***   ## RGCA            7   67.39    9.63  2.3097   0.03671 *     ## RSCA           21  123.73    5.89  1.4135   0.14668       ## Residuals      63  262.60                                     # Griffing's model   # https://www.statforbiology.com/2021/stat_met_diallel_griffing/   # dat1 <- subset(hayman.tobacco, year==1951)   # libs(lmDiallel)   # contrasts(dat1$block) <- \"contr.sum\"   # dmod1 and dmod2 are the same model with different syntax   # dmod1 <- lm(day ~ block + GCA(male, female) + tSCA(male, female) +   #               REC(male, female) , data = dat1)   # dmod2 <- lm.diallel(day ~ male + female, Block=block,    #                     data = dat1, fct = \"GRIFFING1\")   # anova(dmod1)   # anova(dmod2)   ## Response: day   ##             Df  Sum Sq Mean Sq F value    Pr(>F)       ## Block        1    1.42    1.42  0.3416   0.56100       ## GCA          7 2777.17  396.74 95.1805 < 2.2e-16 ***   ## SCA         28 1022.38   36.51  8.7599 6.656e-13 ***   ## Reciprocals 28  191.12    6.83  1.6375   0.05369 .     ## Residuals   63  262.60                                     # Make a factor 'comb' in which G1xG2 is the same cross as G2xG1   dat1 <- transform(dat1,                     comb =                       ifelse(as.character(male) < as.character(female),                              paste0(male,female), paste0(female,male)))   # 'dr' is the direction of the cross, 0 for self   dat1$dr <- 1   dat1 <- transform(dat1,                     dr = ifelse(as.character(male) < as.character(female), -1, dr))   dat1 <- transform(dat1,                     dr = ifelse(as.character(male) == as.character(female), 0, dr))      # asreml r version 3 & 4 code for Mixed Griffing.   # Mohring Table 2, column 2 (after dividing by 10^2) gives variances:   # GCA 12.77, SCA 11.09, RSCA .65, Error 4.23.   # Mohring Supplement ASREML code part1 model is:   # y ~ mu r !r mother and(father) combination combination.dr   # Note that the levels of 'male' and 'female' are the same, so the   # and(female) term tells asreml to use the same levels (or, equivalently,   # fix the correlation of the male/female levels to be 1.   # The block effect is minimial and therefore ignored.   ## libs(asreml, lucid)   ## m1 <- asreml(day~1, data=dat1,   ##              random = ~ male + and(female) + comb + comb:dr)   ## vc(m1)   ##           effect component std.error z.ratio      con   ##    male!male.var   12.77      7.502      1.7 Positive   ##    comb!comb.var   11.11      3.353      3.3 Positive   ## comb:dr!comb.var    0.6603    0.4926     1.3 Positive   ##       R!variance    4.185     0.7449     5.6 Positive      # ----------      # 1952 data. Reproduce table 3 and figure 2 of Hayman 1954b.      dat2 <- subset(hayman.tobacco, year==1952)      # Does flowering date follow a gamma distn?  Maybe.   libs(lattice)   densityplot(~day, data=dat2, main=\"hayman.tobacco\",               xlab=\"flowering date\")         d1 <- subset(dat2, block=='B1')   d2 <- subset(dat2, block=='B2')      libs(reshape2)   m1 <- acast(d1, male~female, value.var='day')   m2 <- acast(d2, male~female, value.var='day')      mn1 <- (m1+t(m1))/2   mn2 <- (m2+t(m2))/2      # Variance and covariance of 'rth' offspring   vr1 <- apply(mn1, 1, var)   vr2 <- apply(mn2, 1, var)   wr1 <- apply(mn1, 1, cov, diag(mn1))   wr2 <- apply(mn2, 1, cov, diag(mn2))   # Remove row names to prevent a mild warning   rownames(mn1) <- rownames(mn2) <- NULL   summ <- data.frame(rbind(mn1,mn2))   summ$block <- rep(c('B1','B2'), each=8)   summ$vr <- c(vr1,vr2)   summ$wr <- c(wr1,wr2)   summ$male <- rep(1:8,2) # Vr and Wr match Hayman table 3      with(summ, plot(wr~vr, type='n', main=\"hayman.tobacco\"))   with(summ, text(vr, wr, male)) # Match Hayman figure 2   abline(0,1,col=\"gray\")   # Hayman notes that 1 and 3 do not lie along the line,   # so modifies them and re-analyzes.  }"},{"path":"/reference/hazell.vegetables.html","id":null,"dir":"Reference","previous_headings":"","what":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"Gross profit 4 vegetable crops 6 years","code":""},{"path":"/reference/hazell.vegetables.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"","code":"data(\"hazell.vegetables\")"},{"path":"/reference/hazell.vegetables.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"data frame 6 observations following 5 variables. year year factor, 6 levels carrot Carrot profit, dollars/acre celery Celery profit, dollars/acre cucumber Cucumber profit, dollars/acre pepper Pepper profit, dollars/acre","code":""},{"path":"/reference/hazell.vegetables.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"values table gross profits (loss) dollars per acre.   criteria example (1) total acres < 200, (2) total   labor < 10000, (3) crop rotation. example shows use linear programming maximize expected profit.","code":""},{"path":"/reference/hazell.vegetables.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"P.B.R. Hazell, (1971).   linear alternative quadratic semivariance programming farm planning   uncertainty.   . J. Agric. Econ., 53, 53-62.   https://doi.org/10.2307/3180297","code":""},{"path":"/reference/hazell.vegetables.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"Carlos Romero, Tahir Rehman. (2003).   Multiple Criteria Analysis Agricultural Decisions. Elsevier.","code":""},{"path":"/reference/hazell.vegetables.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"","code":"if (FALSE) {      library(agridat)   data(hazell.vegetables)   dat <- hazell.vegetables      libs(lattice)   xyplot(carrot+celery+cucumber+pepper ~ year,dat,          ylab=\"yearly profit by crop\",          type='b', auto.key=list(columns=4),          panel.hline=0)    # optimal strategy for planting crops (calculated below)   dat2 <- apply(dat[,-1], 1, function(x) x*c(0, 27.5, 100, 72.5))/1000   colnames(dat2) <- rownames(dat)   barplot(dat2, legend.text=c(\"     0 carrot\", \"27.5 celery\", \" 100 cucumber\", \"72.5 pepper\"),           xlim=c(0,7), ylim=c(-5,120),           col=c('orange','green','forestgreen','red'),           xlab=\"year\", ylab=\"Gross profit, $1000\",           main=\"hazell.vegetables - retrospective profit from optimal strategy\",           args.legend=list(title=\"acres, crop\"))    libs(linprog)   # colMeans(dat[ , -1])   # 252.8333 442.6667 283.8333 515.8333     # cvec = avg across-years profit per acre for each crop   cvec <- c(253, 443, 284, 516)      # Maximize c'x for Ax=b   A <- rbind(c(1,1,1,1), c(25,36,27,87), c(-1,1,-1,1))   colnames(A) <- names(cvec) <- c(\"carrot\",\"celery\",\"cucumber\",\"pepper\")   rownames(A) <- c('land','labor','rotation')    # bvec criteria = (1) total acres < 200, (2) total labor < 10000,   # (3) crop rotation.    bvec <- c(200,10000,0)   const.dir <- c(\"<=\",\"<=\",\"<=\")    m1 <- solveLP(cvec, bvec, A, maximum=TRUE, const.dir=const.dir, lpSolve=TRUE)   # m1$solution # optimal number of acres for each crop   #   carrot    celery  cucumber    pepper   #  0.00000  27.45098 100.00000  72.54902      # Average income for this plan   ## sum(cvec * m1$solution)   ## [1] 77996.08    # Year-to-year income for this plan   ## as.matrix(dat[,-1])    ##           [,1]   ## [1,]  80492.16   ## [2,]  80431.37   ## [3,]  81884.31   ## [4,] 106868.63   ## [5,]  37558.82   ## [6,]  80513.73    # optimum allocation that minimizes year-to-year income variability.   # brute-force search    # For generality, assume we have unequal probabilities for each year.   probs <- c(.15, .20, .20, .15, .15, .15)   # Randomly allocate crops to 200 acres, 100,000 times   #set.seed(1)   mat <- matrix(runif(4*100000), ncol=4)   mat <- 200*sweep(mat, 1, rowSums(mat), \"/\")   # each row is one strategy, showing profit for each of the six years   # profit <- mat    profit <- tcrossprod(mat, as.matrix(dat[,-1])) # Each row is profit, columns are years   # calculate weighted variance using year probabilities   wtvar <- apply(profit, 1, function(x) cov.wt(as.data.frame(x), wt=probs)$cov)   # five best planting allocations that minimizes the weighted variance   ix <- order(wtvar)[1:5]   mat[ix,]   ## carrot celery cucumber pepper   ##          [,1]     [,2]     [,3]     [,4]   ## [1,] 71.26439 28.09259 85.04644 15.59657   ## [2,] 72.04428 27.53299 84.29760 16.12512   ## [3,] 72.16332 27.35147 84.16669 16.31853   ## [4,] 72.14622 29.24590 84.12452 14.48335   ## [5,] 68.95226 27.39246 88.61828 15.03700  }"},{"path":"/reference/heady.fertilizer.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Yield corn, alfalfa, clover two fertilizers","code":""},{"path":"/reference/heady.fertilizer.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"","code":"data(\"heady.fertilizer\")"},{"path":"/reference/heady.fertilizer.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"data frame 81 observations following 3 variables. crop crop rep replicate (block) P phosphorous, pounds/acre K potassium, pounds/acre N nitrogen, pounds/acre yield yield","code":""},{"path":"/reference/heady.fertilizer.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Heady et al. fit two-variable semi-polynomial response surfaces   crop. Clover alfalfa yields tons/acre.   clover alfalfa experiments grown 1952. Corn yields given bu/acre.   corn experiments grown 1952 1953.  test plots   used 1953 1952, fertilizer   applied 1953--response yield due residual fertilizer   1952. experiments used incomplete factorial design.   treatment combinations present.","code":""},{"path":"/reference/heady.fertilizer.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Earl O. Heady, John T. Pesek, William G. Brown. (1955).   Crop Response Surfaces Economic Optima Fertilizer Use.   Agricultural Experiment Station, Iowa State College. Research bulletin   424.  Pages 330-332.   https://lib.dr.iastate.edu/cgi/viewcontent.cgi?filename=12&article=1032&context=ag_researchbulletins&type=additional","code":""},{"path":"/reference/heady.fertilizer.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Pesek, John Heady, Earl O. 1956.   two nutrient-response function determination economic optima   rate grade fertilizer alfalfa.   Soil Science Society America Journal, 20, 240-246.   https://doi.org/10.2136/sssaj1956.03615995002000020025x","code":""},{"path":"/reference/heady.fertilizer.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"","code":"if (FALSE) {  library(agridat) data(heady.fertilizer) dat <- heady.fertilizer  libs(lattice) xyplot(yield ~ P|crop, data=dat, scales=list(relation=\"free\"),        groups=factor(paste(dat$N,dat$K)), auto.key=list(columns=5),        main=\"heady.fertilizer\", xlab=\"Phosphorous\")  # Corn. Matches Heady, p. 292 d1 <- subset(dat, crop==\"corn\") m1 <- lm(yield ~ N + P + sqrt(N) + sqrt(P) + sqrt(N*P), data=d1) summary(m1)   # Alfalfa. Matches Heady, p. 292.  Also Pesek equation 3, p. 241 d2 <- subset(dat, crop==\"alfalfa\") m2 <- lm(yield ~ K + P + sqrt(K) + sqrt(P) + sqrt(K*P), data=d2) summary(m2) ## Coefficients: ##               Estimate Std. Error t value Pr(>|t|) ## (Intercept)  1.8735521  0.1222501  15.326  < 2e-16 *** ## K           -0.0013943  0.0007371  -1.891 0.061237 . ## P           -0.0050195  0.0007371  -6.810 5.74e-10 *** ## sqrt(K)      0.0617458  0.0160142   3.856 0.000196 *** ## sqrt(P)      0.1735383  0.0160142  10.837  < 2e-16 *** ## sqrt(K * P) -0.0014402  0.0007109  -2.026 0.045237 *   # Clover. Matches Heady, p. 292. d3 <- subset(dat, crop==\"clover\") m3 <- lm(yield ~ P + sqrt(K) + sqrt(P) + sqrt(K*P), data=d3) summary(m3)  # Corn with residual fertilizer. Matches Heady eq 56, p. 322. d4 <- subset(dat, crop==\"corn2\") m4 <- lm(yield ~ N + P + sqrt(N) + sqrt(P) + sqrt(N*P), data=d4) summary(m4)    libs(rgl)   with(d1, plot3d(N,P,yield))   with(d2, plot3d(K,P,yield))   with(d3, plot3d(K,P,yield))   with(d4, plot3d(N,P,yield)) # Mostly linear in both N and P   close3d()  }"},{"path":"/reference/heath.cabbage.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cabbage. — heath.cabbage.uniformity","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"Uniformity trial cabbage.","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"","code":"data(\"heath.cabbage.uniformity\")"},{"path":"/reference/heath.cabbage.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"data frame 48 observations following 3 variables. yield pounds per plot col column row row","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"Heath says plot .011 acres. acre 43560 sq ft,   plot 479.16 sq feet, rounds 480 sq feet. Heath Figure   3-1 correctly shaped, plot approximately 12 feet x 40 feet   = 480 sq ft.   plot \"350\" plants.   Harvested 1958.","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"O.V.S. Heath (1970).   Investigation Experiment. Fig. 3-1, p. 50.   https://archive.org/details/investigationbye0000heat","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"None.","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(heath.cabbage.uniformity)   dat <- heath.cabbage.uniformity      # Heath Fig 3-1, p. 50   libs(desplot)   desplot(dat, yield ~ col*row,           aspect=(8*12)/(6*40),           main=\"heath.cabbage.uniformity\")  }"},{"path":"/reference/heath.raddish.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of radish — heath.radish.uniformity","title":"Uniformity trial of radish — heath.radish.uniformity","text":"Uniformity trial radish four containers.","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of radish — heath.radish.uniformity","text":"","code":"data(\"heath.radish.uniformity\")"},{"path":"/reference/heath.raddish.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of radish — heath.radish.uniformity","text":"data frame 400 observations following 4 variables. row row col column block block yield weight per plant, grams","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of radish — heath.radish.uniformity","text":"Weight 399 radish plants grown 1 inch x 1 inch spacing four plastic basins.   Seed wetted 1968-02-15, planted 1968-02-17, harvested 1968-03-26. Heath said, large plants round edges...one   important source variation might competition light.","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of radish — heath.radish.uniformity","text":"O.V.S. Heath (1970).   Investigation Experiment. Table 1, p 24-25.   https://archive.org/details/investigationbye0000heat","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of radish — heath.radish.uniformity","text":"None","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of radish — heath.radish.uniformity","text":"","code":"if (FALSE) {   require(agridat)   data(heath.radish.uniformity)   dat <- heath.radish.uniformity   libs(desplot, dplyr)   desplot(dat, yield ~ col*row|block,           aspect=1,           main=\"heath.radish.uniformity\")    # Indicator for border/interior plants   dat <- mutate(dat,                 inner = row > 1 & row < 10 & col >  1 & col < 10)   # Heath has 5.80 and 9.63 (we assume this is a typo of 9.36)   dat <- group_by(dat, inner)   summarize(dat, mean=mean(yield, na.rm=TRUE))   # Interior plots are significantly lower yielding   anova(aov(yield ~ block + inner, dat))   # lattice::bwplot(yield ~ inner, dat, horiz=0)   # similar to Heath fig 2-2   # lattice::histogram( ~ yield|inner, dat, layout=c(1,2), n=20) }"},{"path":"/reference/henderson.milkfat.html","id":null,"dir":"Reference","previous_headings":"","what":"Milk fat yields for a single cow — henderson.milkfat","title":"Milk fat yields for a single cow — henderson.milkfat","text":"Average daily fat yields (kg/day) milk single cow 35 weeks.","code":""},{"path":"/reference/henderson.milkfat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Milk fat yields for a single cow — henderson.milkfat","text":"data frame 35 observations following 2 variables. week week, numeric yield yield, kg/day","code":""},{"path":"/reference/henderson.milkfat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Milk fat yields for a single cow — henderson.milkfat","text":"Charles McCulloch.  Workshop Generalized Linear Mixed Models. Used permission Charles McCulloch Harold Henderson.","code":""},{"path":"/reference/henderson.milkfat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Milk fat yields for a single cow — henderson.milkfat","text":"None.","code":""},{"path":"/reference/henderson.milkfat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Milk fat yields for a single cow — henderson.milkfat","text":"","code":"if (FALSE) {  library(agridat) data(henderson.milkfat) dat <- henderson.milkfat  plot(yield~week, data=dat, cex = 0.8, ylim=c(0,.9),      main=\"henderson.milkfat\", xlab = \"Week\",      ylab = \"Fat yield (kg/day)\")  # Yield ~ a * t^b * exp(g*t) # where t is time m1 <- nls(yield ~ alpha * week^beta * exp(gamma * week),           data=dat,           start=list(alpha=.1, beta=.1, gamma=.1))  # Or, take logs and fit a linear model # log(yield) ~ log(alpha) + beta*log(t)  + gamma*t m2 <- lm(log(yield) ~ 1 + log(week) + week, dat)  # Or, use glm and a link to do the transform m3 <- glm(yield ~ 1 + log(week) + week, quasi(link = \"log\"), dat)  # Note: m2 has E[log(y)] = log(alpha) + beta*log(t)  + gamma*t #  and m3 has  log(E[y]) = log(alpha) + beta*log(t)  + gamma*t  # Generalized additive models libs(\"mgcv\") m4 <- gam(log(yield) ~ s(week), gaussian, dat) m5 <- gam(yield ~ s(week), quasi(link = \"log\"), dat)  # Model predictions pdat <- data.frame(week = seq(1, 35, by = 0.1)) pdat <- transform(pdat, p1 = predict(m1, pdat),                   p2 = exp(predict(m2, pdat)), # back transform                   p3 = predict(m3, pdat, type=\"resp\"), # response scale                   p4 = exp(predict(m4, pdat)),                   p5 = predict(m5, pdat, type=\"response\"))  # Compare fits with(pdat, {   lines(week, p1)   lines(week, p2, col = \"red\", lty=\"dotted\")   lines(week, p3, col = \"red\", lty=\"dashed\")   lines(week, p4, col = \"blue\", lty = \"dashed\")   lines(week, p5, col = \"blue\") })  legend(\"topright\",   c(\"obs\", \"lm, log-transformed\", \"glm, log-link\",     \"gam, log-transformed\", \"gam, log-link\"),   lty = c(\"solid\", \"dotted\", \"dashed\", \"dashed\", \"solid\"),   col = c(\"black\", \"red\", \"red\", \"blue\", \"blue\"),   cex = 0.8, bty = \"n\")  }"},{"path":"/reference/hernandez.nitrogen.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"Corn response nitrogen fertilizer 5 sites.","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"data frame 136 observations following 5 variables. site site factor, 5 levels loc location name rep rep, 4 levels nitro nitrogen, kg/ha yield yield, Mg/ha","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"Experiment conducted 2006 5 sites Minnesota.","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"Hernandez, J.. Mulla, D.J. 2008.   Estimating uncertainty economically optimum fertilizer rates,   Agronomy Journal, 100, 1221-1229.   https://doi.org/10.2134/agronj2007.0273 Electronic data kindly supplied Jose Hernandez.","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"","code":"if (FALSE) {      library(agridat)   data(hernandez.nitrogen)   dat <- hernandez.nitrogen   cprice <- 118.1 # $118.1/Mg or $3/bu   nprice <- 0.6615 # $0.66/kg N or $0.30/lb N      # Hernandez optimized yield with a constraint on the ratio of the prices.   # Simpler to just calculate the income and optimize that.   dat <- transform(dat, inc = yield * cprice - nitro * nprice)   libs(lattice)   xyplot(inc ~ nitro|site, dat, groups=rep, auto.key=list(columns=4),          xlab=\"nitrogen\", ylab=\"income\", main=\"hernandez.nitrogen\")      # Site 5 only   dat1 <- subset(dat, site=='S5')      # When we optimize on income, a simple quadratic model works just fine,   # and matches the results of the nls model below.   # Note, 'poly(nitro)' gives weird coefs   lm1 <- lm(inc ~ 1 + nitro + I(nitro^2), data=dat1)    c1 <- coef(lm1)   -c1[2] / (2*c1[3])   ##    nitro   ## 191.7198    # Optimum nitrogen is 192 for site 5         # Use the delta method to get a conf int   libs(\"car\")   del1 <- deltaMethod(lm1, \"-b1/(2*b2)\", parameterNames= paste(\"b\", 0:2, sep=\"\"))   # Simple Wald-type conf int for optimum   del1$Est +  c(-1,1) * del1$SE * qt(1-.1/2, nrow(dat1)-length(coef(lm1)))   ## 118.9329 264.5067         # Nonlinear regression   # Reparameterize b0 + b1*x + b2*x^2 using th2 = -b1/2b2 so that th2 is optimum   nls1 <- nls(inc ~ th11- (2*th2*th12)*nitro + th12*nitro^2,               data = dat1, start = list(th11 = 5, th2 = 150, th12 =-0.1),)   summary(nls1)   # Wald conf int   wald <- function(object, alpha=0.1){     nobs <- length(resid(object))     npar <- length(coef(object))     est <- coef(object)     stderr <- summary(object)$parameters[,2]     tval <- qt(1-alpha/2, nobs-npar)     ci <- cbind(est - tval * stderr, est + tval * stderr)     colnames(ci) <- paste(round(100*c(alpha/2, 1-alpha/2), 1), \"pct\", sep= \"\")     return(ci)   }   round(wald(nls1),2)   ##          5   ## th11 936.44 1081.93   ## th2  118.93  264.51   # th2 is the optimum   ## th12  -0.03   -0.01         # Likelihood conf int   libs(MASS)   round(confint(nls1, \"th2\", level = 0.9),2)   ##       5   ## 147.96 401.65         # Bootstrap conf int   libs(boot)   dat1$fit <- fitted(nls1)   bootfun <- function(rs, i) { # bootstrap the residuals     dat1$y <- dat1$fit + rs[i]     coef(nls(y ~ th11- (2*th2*th12)*nitro + th12*nitro^2, dat1,              start = coef(nls1) ))   }   res1 <- scale(resid(nls1), scale = FALSE) # remove the mean.  Why? It is close to 0.   set.seed(5) # Sometime the bootstrap fails, but this seed works   boot1 <- boot(res1, bootfun, R = 500)   boot.ci(boot1, index = 2, type = c(\"perc\"), conf = 0.9)   ## Level     Percentile   ## 90  }"},{"path":"/reference/hessling.argentina.html","id":null,"dir":"Reference","previous_headings":"","what":"Relation between wheat yield and weather in Argentina — hessling.argentina","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"Relation wheat yield weather Argentina","code":""},{"path":"/reference/hessling.argentina.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"data frame 30 observations following 15 variables. yield average yield, kg/ha year year p05 precipitation (mm) May p06 precip June p07 precip July p08 precip August p09 precip Septempber p10 precip October p11 precip November p12 precip December t06 june temperature deviation normal, deg Celsius t07 july temp deviation t08 august temp deviation t09 september temp deviation t10 october temp deviation t11 november temp deviation","code":""},{"path":"/reference/hessling.argentina.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"Argentina wheat typically sown May August.  Harvest begins   November December.","code":""},{"path":"/reference/hessling.argentina.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"N. . Hessling, 1922.   Relations weather yield wheat   Argentine republic, Monthly Weather Review, 50, 302-308.   https://doi.org/10.1175/1520-0493(1922)50<302:RBTWAT>2.0.CO;2","code":""},{"path":"/reference/hessling.argentina.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"","code":"if (FALSE) {  library(agridat) data(hessling.argentina) dat <- hessling.argentina  # Fig 1 of Hessling.  Use avg Aug-Nov temp to predict yield dat <- transform(dat, avetmp=(t08+t09+t10+t11)/4) # Avg temp m0 <- lm(yield ~ avetmp, dat) plot(yield~year, dat, ylim=c(100,1500), type='l', main=\"hessling.argentina: observed (black) and predicted yield (blue)\") lines(fitted(m0)~year, dat, col=\"blue\")  # A modern, PLS approach libs(pls) yld <- dat[,\"yield\",drop=FALSE] yld <- as.matrix(sweep(yld, 2, colMeans(yld))) cov <- dat[,c(\"p06\",\"p07\",\"p08\",\"p09\",\"p10\",\"p11\", \"t08\",\"t09\",\"t10\",\"t11\")] cov <- as.matrix(scale(cov)) m2 <- plsr(yld~cov)  # biplot(m2, which=\"x\", var.axes=TRUE, main=\"hessling.argentina\")   libs(corrgram) corrgram(dat, main=\"hessling.argentina - correlations of yield and covariates\")  }"},{"path":"/reference/hildebrand.systems.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"Maize yields four cropping systems 14 -farm trials.","code":""},{"path":"/reference/hildebrand.systems.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"data frame 56 observations following 4 variables. village village, 2 levels farm farm, 14 levels system cropping system yield yield, t/ha","code":""},{"path":"/reference/hildebrand.systems.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"Yields 14 -farm trials Phalombe Project region   south-eastern Malawi.  farms located near two different   villages. farm, four different cropping systems tested.    systems :   LM = Local Maize, LMF = Local Maize Fertilizer,   CCA = Improved Composite, CCAF = Improved Composite Fertilizer.","code":""},{"path":"/reference/hildebrand.systems.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"P. E. Hildebrand, 1984.   Modified Stability Analysis Farmer Managed, -Farm Trials.   Agronomy Journal, 76, 271--274.   https://doi.org/10.2134/agronj1984.00021962007600020023x","code":""},{"path":"/reference/hildebrand.systems.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"H. P. Piepho, 1998.   Methods Comparing Yield Stability Cropping Systems.   Journal Agronomy Crop Science, 180, 193--213.   https://doi.org/10.1111/j.1439-037X.1998.tb00526.x","code":""},{"path":"/reference/hildebrand.systems.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"","code":"if (FALSE) {      library(agridat)   data(hildebrand.systems)   dat <- hildebrand.systems    # Piepho 1998 Fig 1   libs(lattice)   dotplot(yield ~ system, dat, groups=village, auto.key=TRUE,           main=\"hildebrand.systems\", xlab=\"cropping system by village\")     # Plot of risk of 'failure' of System 2 vs System 1   s11 = .30;  s22 <- .92; s12 = .34   mu1 = 1.35; mu2 = 2.70   lambda <- seq(from=0, to=5, length=20)   system1 <- pnorm((lambda-mu1)/sqrt(s11))   system2 <- pnorm((lambda-mu2)/sqrt(s22))    # A simpler view   plot(lambda, system1, type=\"l\", xlim=c(0,5), ylim=c(0,1),        xlab=\"Yield level\", ylab=\"Prob(yield < level)\",        main=\"hildebrand.systems - risk of failure for each system\")   lines(lambda, system2, col=\"red\")      # Prob of system 1 outperforming system 2. Table 8   pnorm((mu1-mu2)/sqrt(s11+s22-2*s12))   # .0331    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)      # Environmental variance model, unstructured correlations        dat <- dat[order(dat$system, dat$farm),]     m1 <- asreml(yield ~ system, data=dat,                  resid = ~us(system):farm)          # Means, table 5     ## predict(m1, data=dat, classify=\"system\")$pvals     ##  system pred.value std.error  est.stat     ##     CCA      1.164    0.2816 Estimable     ##    CCAF      2.657    0.3747 Estimable     ##      LM      1.35     0.1463 Estimable     ##     LMF      2.7      0.2561 Estimable          # Variances, table 5     # lucid::vc(m1)[c(2,4,7,11),]     ##              effect component std.error z.ratio constr     ##    R!system.CCA:CCA    1.11      0.4354     2.5    pos     ##  R!system.CCAF:CCAF    1.966     0.771      2.5    pos     ##      R!system.LM:LM    0.2996    0.1175     2.5    pos     ##    R!system.LMF:LMF    0.9185    0.3603     2.5    pos          # Stability variance model     m2 <- asreml(yield ~ system, data=dat,                  random = ~ farm,                  resid = ~ dsum( ~ units|system))     m2 <- update(m2)     # predict(m2, data=dat, classify=\"system\")$pvals          ## # Variances, table 6     # lucid::vc(m2)     ##        effect component std.error z.ratio bound      ##          farm 0.2998      0.1187   2.5        P 0       ##  system_CCA!R 0.4133      0.1699   2.4        P 0       ## system_CCAF!R 1.265       0.5152   2.5        P 0       ##   system_LM!R 0.0003805   0.05538  0.0069     P 1.5     ##  system_LMF!R 0.5294      0.2295   2.3        P 0     }    }"},{"path":"/reference/holland.arthropods.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"Counts arthropods grid-sampled wheat field","code":""},{"path":"/reference/holland.arthropods.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"","code":"data(\"holland.arthropods\")"},{"path":"/reference/holland.arthropods.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"data frame 63 observations following 8 variables. row row col column n.brevicollis species counts linyphiidae species counts collembola species counts carabidae species counts lycosidae species counts weedcover percent weed cover","code":""},{"path":"/reference/holland.arthropods.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"Arthropods sampled 30m x 30m grid wheat field near   Wimborne, Dorest, UK 6 dates Jun/Jul 1996.  Arthropod counts   aggregated across 6 dates. Holland et al. used SADIE (Spatial Analysis Distance Indices)   look spatial patterns.  Significant patterns found   N. brevicollis, Carabidae, Lycosidae.  Lycosidae counts also   significantly associated weed cover. Used permission John Holland.","code":""},{"path":"/reference/holland.arthropods.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"Holland J. M., Perry J. N., Winder, L. (1999).   within-field spatial temporal distribution arthropods   within winter wheat.   Bulletin Entomological Research, 89: 499-513.  Figure 3 (large   grid 1996).   https://doi.org/10.1017/S0007485399000656","code":""},{"path":"/reference/holland.arthropods.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"","code":"if (FALSE) {    library(agridat) data(holland.arthropods) dat <- holland.arthropods     # use log count to make it possible to have same scale for insects   libs(reshape2, lattice)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   dat2 <- melt(dat, id.var=c('row','col'))   contourplot(log(value) ~ col*row|variable, dat2,               col.regions=grays(7), region=TRUE,               main=\"holland.arthropods - log counts in winter wheat\")   if(0){   # individual species   libs(lattice)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   contourplot(linyphiidae ~ col*row, dat, at=c(0,40,80,120,160,200), region=TRUE,               col.regions=grays(5),               main=\"holland.arthropods - linyphiidae counts in winter wheat\")   contourplot(n.brevicollis ~ col*row, dat, region=TRUE)   contourplot(linyphiidae~ col*row, dat, region=TRUE)   contourplot(collembola ~ col*row, dat, region=TRUE)   contourplot(carabidae ~ col*row, dat, region=TRUE)   contourplot(lycosidae ~ col*row, dat, region=TRUE)   contourplot(weedcover ~ col*row, dat, region=TRUE) }  }"},{"path":"/reference/holshouser.splitstrip.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-strip-plot of soybeans — holshouser.splitstrip","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"Split-strip-plot soybeans","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"data frame 160 observations following 8 variables. block block factor, 4 levels plot plot number cultivar cultivar factor, 4 levels spacing row spacing pop population (thousand per acre) yield yield row row col column","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"Within block, cultivars whole plots.  Withing whole plots,   spacing applied strips vertically, population applied   strips horizontally. Used permission David Holshouser Virginia Polytechnic.","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil Sciences   CRC Press, Boca Raton, FL.  Page 493.","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"","code":"if (FALSE) {    library(agridat) data(holshouser.splitstrip) dat <- holshouser.splitstrip dat$spacing <- factor(dat$spacing) dat$pop <- factor(dat$pop)  # Experiment layout and field trends   libs(desplot)   desplot(dat, yield ~ col*row,           out1=block, # unknown aspect           main=\"holshouser.splitstrip\")   desplot(dat, spacing ~ col*row,           out1=block, out2=cultivar, # unknown aspect           col=cultivar, text=pop, cex=.8, shorten='none', col.regions=c('wheat','white'),           main=\"holshouser.splitstrip experiment design\")   # Overall main effects and interactions   libs(HH)   interaction2wt(yield~cultivar*spacing*pop, dat,                  x.between=0, y.between=0,                  main=\"holshouser.splitstrip\")     ## Schabenberger's SAS model, page 497   ## proc mixed data=splitstripplot;   ##   class block cultivar pop spacing;   ##   model yield = cultivar spacing spacing*cultivar pop pop*cultivar   ##                 spacing*pop spacing*pop*cultivar / ddfm=satterth;   ##   random block block*cultivar block*cultivar*spacing block*cultivar*pop;   ## run;       ## Now lme4. This design has five error terms--four are explicitly given.   libs(lme4)   libs(lucid)   m1 <- lmer(yield ~ cultivar * spacing * pop +                (1|block) + (1|block:cultivar) + (1|block:cultivar:spacing) +                (1|block:cultivar:pop), data=dat)   vc(m1) ## Variances match Schabenberger, page 498.   ##                    grp        var1 var2   vcov  sdcor   ##     block:cultivar:pop (Intercept) <NA> 2.421  1.556   ## block:cultivar:spacing (Intercept) <NA> 1.244  1.116   ##         block:cultivar (Intercept) <NA> 0.4523 0.6725   ##                  block (Intercept) <NA> 3.037  1.743   ##               Residual        <NA> <NA> 3.928  1.982    }"},{"path":"/reference/holtsmark.timothy.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of timothy — holtsmark.timothy.uniformity","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Uniformity trial timothy hay circa 1905","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"","code":"data(\"holtsmark.timothy.uniformity\")"},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"data frame 240 observations following 3 variables. row row col column yield yield per plot, kg","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Field width: 40 plots * 5 m = 200 m. Field length: 6 plots * 5 m = 30 m Holtsmark & Larsen used trial compare standard deviations   different sized plots (combined smaller plots).","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Holtsmark, G Larsen, BR (1905).   Om Muligheder indskraenke de Fejl, som ved Markforsog betinges af Jordens Uensartethed.   Tidsskrift Landbrugets Planteavl. 12, 330-351. (Danish)   Data page 347.   https://books.google.com/books?id=MdM0AQAAMAAJ&pg=PA330   https://dca.au.dk/publikationer/historiske/planteavl/ Uber die Fehler, welche bei Feldversuchen, durch die Ungleichartigkeit des Bodens bedingt werden.   Die Landwirtschaftlichen Versuchs-Stationen, 65, 1--22. (German)   https://books.google.com/books?id=eXA2AQAAMAAJ&pg=PA1","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Theodor Roemer (1920).   Der Feldversuch. Page 67, table 11.","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(holtsmark.timothy.uniformity) dat <- holtsmark.timothy.uniformity  # Define diagonal 'check' plots like Holtsmark does dat <- transform(dat,                  check = ifelse(floor((row+col)/3)==(row+col)/3, \"C\", \"\"))                   libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, text=check, show.key=FALSE,         aspect=30/200, # true aspect         main=\"holtsmark.timothy.uniformity\")  # sd(dat$yield) # 2.92 matches Holtsmark p. 348  }"},{"path":"/reference/huehn.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Multi-environment trial illustrate stability statistics","code":""},{"path":"/reference/huehn.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"","code":"data(\"huehn.wheat\")"},{"path":"/reference/huehn.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"data frame 200 observations following 3 variables. gen genotype env environment yield yield dt/ha","code":""},{"path":"/reference/huehn.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Yields winter-wheat trial 20 genotypes 10 environments. Note: Huehn 1979 use genotype-centered data calculating   stability statistics.","code":""},{"path":"/reference/huehn.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Manfred Huehn (1979).   Beitrage zur Erfassung der phanotypischen Stabilitat .   Vorschlag einiger auf Ranginformationen beruhenden Stabilitatsparameter.   EDV Medizin und Biologie, 10 (4), 112-117.  Table 1.   https://nbn-resolving.de/urn:nbn:de:bsz:15-qucosa-145979","code":""},{"path":"/reference/huehn.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Nassar, R Huehn, M. (1987).   Studies estimation phenotypic stability: Tests significance   nonparametric measures phenotypic stability.   Biometrics, 43, 45-53.","code":""},{"path":"/reference/huehn.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"","code":"if (FALSE) {    library(agridat)   data(huehn.wheat)   dat <- huehn.wheat      # Nassar & Huehn, p. 51 \"there is no evidence for differences in stability   # among the 20 varieties\".   libs(gge)   m1 <- gge(dat, yield ~ gen*env)   biplot(m1, main=\"huehn.wheat\")      libs(reshape2)   datm <- acast(dat, gen~env, value.var='yield')    apply(datm,1,mean) # Gen means match Huehn 1979 table 1   apply(datm,2,mean) # Env means   apply(datm, 2, rank) # Ranks match Huehn table 1    # Huehn 1979 did not use genotype-centered data, and his definition   # of S2 is different from later papers.    # I'm not sure where 'huehn' function is found   # apply(huehn(datm, corrected=FALSE), 2, round,2) # S1 matches Huehn   ##          MeanRank   S1   ## Jubilar      6.70 3.62   ## Diplomat     8.35 5.61   ## Caribo      11.20 6.07   ## Cbc710      13.65 6.70    # Very close match to Nassar & Huehn 1987 table 4.   # apply(huehn(datm, corrected=TRUE), 2, round,2)   ##          MeanRank   S1   Z1    S2   Z2   ## Jubilar      10.2 4.00 5.51 11.29 4.29   ## Diplomat     11.0 6.31 0.09 27.78 0.27   ## Caribo       10.6 6.98 0.08 34.49 0.01   ## Cbc710       10.9 8.16 1.78 47.21 1.73  }"},{"path":"/reference/hughes.grapes.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of grape, disease incidence — hughes.grapes","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"Disease incidence grape leaves RCB experiment 6 different   treatments.","code":""},{"path":"/reference/hughes.grapes.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"data frame 270 observations following 6 variables. block Block factor, 1-3 trt Treatment factor, 1-6 vine Vine factor, 1-3 shoot Shoot factor, 1-5 diseased Number diseased leaves per shoot total Number total leaves per shoot","code":""},{"path":"/reference/hughes.grapes.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"data come study downy mildew grapes.    experiment conducted Wooster, Ohio, experimental farm   Ohio Agricultural Research Development Center, Ohio State   University. 3 blocks 6 treatments.  Treatment 1   unsprayed control.  30 Sep 1990, disease incidence   measured.  plot, 5 randomly chosen shoots 3   vines observed.  canopy closed shoots   intertwined.  shoot, total number leaves number   infected leaves recorded. Used permission Larry Madden.","code":""},{"path":"/reference/hughes.grapes.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"Hughes, G. Madden, LV. 1995.   methods allowing aggregated patterns disease incidence   analysis data designed experiments.   Plant Pathology, 44, 927--943.   https://doi.org/10.1111/j.1365-3059.1995.tb02651.x","code":""},{"path":"/reference/hughes.grapes.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"Hans-Pieter Piepho. 1999.   Analysing disease incidence data designed experiments   generalized linear mixed models.   Plant Pathology, 48, 668--684.   https://doi.org/10.1046/j.1365-3059.1999.00383.x","code":""},{"path":"/reference/hughes.grapes.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"","code":"if (FALSE) {    library(agridat) data(hughes.grapes) dat <- hughes.grapes  dat <- transform(dat, rate = diseased/total, plot=trt:block)    # Trt 1 has higher rate, more variable, Trt 3 lower rate, less variable   libs(lattice)   foo <- bwplot(rate ~ vine|block*trt, dat, main=\"hughes.grapes\",                 xlab=\"vine\")   libs(latticeExtra)   useOuterStrips(foo)     # Table 1 of Piepho 1999   tapply(dat$rate, dat$trt, mean) # trt 1 does not match Piepho   tapply(dat$rate, dat$trt, max)     # Piepho model 3.  Binomial data.  May not be exactly the same model      # Use the binomial count data with lme4   libs(lme4)   m1 <- glmer(cbind(diseased, total-diseased) ~ trt + block + (1|plot/vine),               data=dat, family=binomial)   m1    # Switch from binomial counts to bernoulli data   libs(aod)   bdat <- splitbin(cbind(diseased, total-diseased) ~ block+trt+plot+vine+shoot,                    data=dat)$tab   names(bdat)[2] <- 'y'      # Using lme4   m2 <- glmer(y ~ trt + block + (1|plot/vine), data=bdat, family=binomial)   m2      # Now using MASS:::glmmPQL   libs(MASS)   m3 <- glmmPQL(y ~ trt + block, data=bdat,                 random=~1|plot/vine, family=binomial)   m3  }"},{"path":"/reference/hunter.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"Corn yield response nitrogen","code":""},{"path":"/reference/hunter.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"data frame 54 observations following 4 variables. nitro nitrogen fertilizer, pound/acre year year loc location yield yield, bu/ac","code":""},{"path":"/reference/hunter.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"Experiments conducted eastern Oregon years   1950-1952. Planting rates varied 15,000 21,000 planter per acre.","code":""},{"path":"/reference/hunter.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"Albert S. Hunter, John . Yungen (1955).  Influence   Variations Fertility Levels Upon Yield Protein   Content Field Corn Eastern Oregon.   Soil Science Society America Journal, 19, 214-218.   https://doi.org/10.2136/sssaj1955.03615995001900020027x","code":""},{"path":"/reference/hunter.corn.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"James Leo Paschal, Burton Leroy French (1956).   method economic analysis applied nitrogen fertilizer rate   experiments irrigated corn.   Tech Bull 1141. United States Dept Agriculture.   books.google.com/books?id=gAdZtsEziCcC&pg=PP1","code":""},{"path":"/reference/hunter.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"","code":"if (FALSE) {  library(agridat) data(hunter.corn) dat <- hunter.corn  dat <- transform(dat, env=factor(paste(loc,year)))  libs(lattice) xyplot(yield~nitro|env, dat, type='b', main=\"hunter.corn - nitrogen response curves\")  }"},{"path":"/reference/hutchinson.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — hutchinson.cotton.uniformity","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"Uniformity trial cotton harvested 1941","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"","code":"data(\"hutchinson.cotton.uniformity\")"},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"data frame 2000 observations following 3 variables. row row ordinate col column ordinate yield yield per plant, grams","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"data lint yield single plants cotton uniformity   trial St. Vincent 1940-41. experiment planted 50 rows   40 plants row. spacing 1.5 feet within rows 4   feet rows. Field length: 40 plants * 1.5 feet = 60 feet Field width: 50 columns * 4 feet = 200 feet data made available special help staff   Rothamsted Research Library. Rothamsted library scanned paper documents pdf.   K.Wright used pdf manually type values Excel file   immediately checked hand-typed values. Plants marked \"Dead\"   PDF left blank. 6 numbers illegible   PDF. also left blank.","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 2.","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":". C. Brewer R. Mead (1986).   Continuous Second Order Models Spatial Variation Application Efficiency Field Crop Experiments.   Journal Royal Statistical Society. Series (General), 149(4), 314–348.  See page 325.   http://doi.org/10.2307/2981720","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(hutchinson.cotton.uniformity)   dat <- hutchinson.cotton.uniformity      require(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, flip=TRUE, aspect=(40*1.5)/(50*4), # true aspect           main=\"hutchinson.cotton.uniformity\") }"},{"path":"/reference/igue.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"Uniformity trial sugarcane Brazil, 1982.","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"","code":"data(\"igue.sugarcane.uniformity\")"},{"path":"/reference/igue.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"data frame 1512 observations following 3 variables. row row col column yield yield, kg/plot","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"uniformity trial sugarcane state Sao Paulo, Brazil, 1982.   field 40 rows, 90 m long, 1.5 m rows. Field width: 36 plots * 1.5 m = 54 m Field length: 42 plots * 2 m = 84 m","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"Toshio Igue, Ademar Espironelo, Heitor Cantarella, Erseni Joao Nelli. (1991).   Tamanho e forma de parcela experimental para cana-de-acucar (Plot size shape sugar cane experiments).   Bragantia, 50, 163-180. Appendix, page 169-170.   https://dx.doi.org/10.1590/S0006-87051991000100016","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"None","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(igue.sugarcane.uniformity) dat <- igue.sugarcane.uniformity  # match Igue CV top row of page 171 sd(dat$yield)/mean(dat$yield) # 16.4  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, tick=TRUE, aspect=(42*2)/(36*1.5),         main=\"igue.sugarcane.uniformity\")    }"},{"path":"/reference/ilri.sheep.html","id":null,"dir":"Reference","previous_headings":"","what":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Birth weight weaning weight 882 lambs partial diallel   cross Dorper Red Maasi breeds.","code":""},{"path":"/reference/ilri.sheep.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"data frame 882 observations following 12 variables. year year lamb birth, 1991-1996 lamb lamb id sex sex lamb, M=Male/F=Female gen genotype, DD, DR, RD, RR birthwt weight lamb birth, kg weanwt weight lamb weaning, kg weanage age lamb weaning, days ewe ewe id ewegen ewe genotype: D, R damage ewe (dam) age years ram ram id ramgen ram genotype: D, R","code":""},{"path":"/reference/ilri.sheep.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Red Maasai sheep East Africa perceived resistant   certain parasites.  ILRI decided 1990 investigate degree   resistance exhibited Red Maasai breed initiated study   Kenya. susceptible breed, Dorper,   chosen provide direct comparison Red Maasai.   Dorper well-adapted area also larger Red   Maasai, makes sheep attractive farmers. Throughout six years 1991 1996 Dorper (D), Red Maasai (R)   Red Maasai x Dorper crossed ewes mated Red Maasai Dorper   rams produce number different lamb genotypes. purposes   example, following four offspring genotypes   considered (Sire x Dam): D x D, D x R, R x D R x R. Records missing 182 lambs, mostly earlier death.","code":""},{"path":"/reference/ilri.sheep.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Mixed model analysis estimation components genetic   variation lamb weaning weight. International Livestock Research Institute.   Permanent link: https://hdl.handle.net/10568/10364   https://biometrics.ilri.org/CS/case   Retrieved Dec 2011. Used via license: Creative Commons -NC-SA 3.0.","code":""},{"path":"/reference/ilri.sheep.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Baker, RL Nagda, S. Rodriguez-Zas, SL Southey, BR   Audho, JO Aduda, EO Thorpe, W. (2003).   Resistance resilience gastro-intestinal nematode parasites   relationships productivity Red Maasai, Dorper Red Maasai x   Dorper crossbred lambs sub-humid tropics.   Animal Science, 76, 119-136.   https://doi.org/10.1017/S1357729800053388 Gota Morota, Hao Cheng, Dianne Cook, Emi Tanaka (2021).   ASAS-NANP SYMPOSIUM: prospects interactive dynamic graphics   era data-rich animal science.   Journal Animal Science, Volume 99, Issue 2, February 2021, skaa402.   https://doi.org/10.1093/jas/skaa402","code":""},{"path":"/reference/ilri.sheep.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"","code":"if (FALSE) {      library(agridat)   data(ilri.sheep)   dat <- ilri.sheep   dat <- transform(dat, lamb=factor(lamb), ewe=factor(ewe), ram=factor(ram),                    year=factor(year))   # dl is linear covariate, same as damage, but truncated to [2,8]   dat <- within(dat, {     dl <- damage     dl <- ifelse(dl < 3, 2, dl)     dl <- ifelse(dl > 7, 8, dl)     dq <- dl^2   })    dat <- subset(dat, !is.na(weanage))    # EDA   libs(lattice)   ## bwplot(weanwt ~ year, dat, main=\"ilri.sheep\", xlab=\"year\", ylab=\"Wean weight\",   ##        panel=panel.violin) # Year effect   bwplot(weanwt ~ factor(dl), dat,          main=\"ilri.sheep\", xlab=\"Dam age\", ylab=\"Wean weight\") # Dam age effect   # bwplot(weanwt ~ gen, dat,   #        main=\"ilri.sheep\", xlab=\"Genotype\", ylab=\"Wean weight\") # Genotype differences   xyplot(weanwt ~ weanage, dat, type=c('p','smooth'),          main=\"ilri.sheep\", xlab=\"Wean age\", ylab=\"Wean weight\") # Age covariate    # case study page 4.18   lm1 <- lm(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen, data=dat)   summary(lm1)   anova(lm1)    # ----------    libs(lme4)   lme1 <- lmer(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen +                  (1|ewe) + (1|ram), data=dat)   print(lme1, corr=FALSE)   lme2 <- lmer(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen +                  (1|ewe), data=dat)   lme3 <- lmer(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen +                  (1|ram), data=dat)   anova(lme1, lme2,  lme3)    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     # case study page 4.20     m1 <- asreml(weanwt ~ year + sex + weanage + dl + dq + ramgen + ewegen,                  data=dat)     # wald(m1)        # case study page 4.26     m2 <- asreml(weanwt ~ year + sex + weanage + dl + dq + ramgen + ewegen,                  random = ~ ram + ewe, data=dat)     # wald(m2)          # case study page 4.37, year means     # predict(m2, data=dat, classify=\"year\")     ##   year predicted.value standard.error est.status     ## 1   91       12.638564      0.2363652  Estimable     ## 2   92       11.067659      0.2285252  Estimable     ## 3   93       11.561932      0.1809891  Estimable     ## 4   94        9.636058      0.2505478  Estimable     ## 5   95        9.350247      0.2346849  Estimable     ## 6   96       10.188482      0.2755387  Estimable   }    }"},{"path":"/reference/immer.sugarbeet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"Uniformity trial sugarbeets, Minnesota, 1930, measurements   yield, sugar, purity.","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"data frame 600 observations following 5 variables. year year experiment row row col column yield yield, pounds per plot sugar sugar percentage purity apparent purity","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"1930 Experiment Beets planted rows 22 inches apart, thinned 1 plant per   row. harvest, rows marked segments 33 feet long   2 foot alleys ends plots.  harvested area 60 rows   350 feet long. Field width: 10 plots * 33 feet + 9 alleys * 2 feet = 348 feet Field length: 60 plots/rows * 22 /row / 12 /feet = 110 feet Planted 1930.  Field conditions uniform.  Beets planted   rows 22 inches apart.  thinning, one beet left   12-inch unit.  harvest, field marked plot 33 feet   long, 2-foot alley plots minimize carryover   harvester.  sample 10 beets taken uniformly (approximately   every third beet) measured sugar percentage apparent   purity.  beets counted weighing time yields   calculated basis 33 beets per plot. Immer found aggregating data one row two   resulted dramatic reduction standard error (yield). ---------- 1931 Experiment Planted 13 May 1931. Field layout previous year.   Unclear land used. Field width: 10 plots * 33 feet + 9 alleys * 2 feet = 348 feet Field length: 60 plots * 22 inches/row / 12 /feet = 110 feet data experiment published Immer (1933),   deposited Rothamsted. data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"Immer, F. R. (1932).   Size shape plot relation field experiments sugar beets.   Journal Agricultural Research, 44, 649-668.   https://naldc.nal.usda.gov/download/IND43968078/PDF Immer, F. R. S. M. Raleigh (1933).   studies size shape plot relation field experiments sugar beets.   Journal Agricultural Research, 47, 591-598.   https://naldc.nal.usda.gov/download/IND43968370/PDF   Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"","code":"library(agridat)    data(immer.sugarbeet.uniformity)   dat <- immer.sugarbeet.uniformity    # Immer numbers rows from the top   libs(desplot)   # Similar to Immer (1932) figure 2   desplot(dat, yield~col*row, subset=year==1930,           aspect=110/348, tick=TRUE, flip=TRUE, # true aspect           main=\"immer.sugarbeet.uniformity - 1930 yield\")    # Similar to Immer (1932) figure 3   desplot(dat, sugar~col*row, subset=year==1930,           aspect=110/348, tick=TRUE, flip=TRUE,           main=\"immer.sugarbeet.uniformity - 1930 sugar\")    # Similar to Immer (1932) figure 4   desplot(dat, purity~col*row, subset=year==1930,           aspect=110/348, tick=TRUE, flip=TRUE,           main=\"immer.sugarbeet.uniformity - 1930 purity\")     pairs(dat[,c('yield','sugar','purity')],         main=\"immer.sugarbeet.uniformity\")     # Similar to Immer (1933) figure 1   desplot(dat, yield~col*row, subset=year==1931,           aspect=110/348, tick=TRUE, flip=TRUE, # true aspect           main=\"immer.sugarbeet.uniformity - 1931 yield\")"},{"path":"/reference/ivins.herbs.html","id":null,"dir":"Reference","previous_headings":"","what":"Percent ground cover of herbage species and nettles. — ivins.herbs","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"Percent ground cover herbage species nettles.","code":""},{"path":"/reference/ivins.herbs.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"data frame 78 observations following 4 variables. block block, 6 levels gen genotype, 13 levels nettle percent ground cover nettles herb percent ground cover herbage species","code":""},{"path":"/reference/ivins.herbs.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"University Nottingham farm, 13 different strains species   herbage plants sown 4 acres RCB design.    grass species sown together white clover seed. establishment herbage plants, became apparent   Urtica dioica (nettle) became established according   particular herbage plant plot.  particular, nettle became   established plots sown leguminous species two grass   species.  graminaceous plots less nettles. data percentage ground cover nettle herbage   plants September 1951. Note, percent ground cover amounts originally   reported 'trace'. arbitrarily set 0.1   data.","code":""},{"path":"/reference/ivins.herbs.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"Ivins, JD. (1952).   Concerning Ecology Urtica Dioica L.,   Journal Ecology, 40, 380-382.   https://doi.org/10.2307/2256806","code":""},{"path":"/reference/ivins.herbs.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"Ivins, JD (1950). Weeds relation establishment Ley.   Grass Forage Science, 5, 237--242.   https://doi.org/10.1111/j.1365-2494.1950.tb01287.x O'Gorman, T.W. (2001). comparison F-test, Friedman's test,   several aligned rank tests analysis randomized complete   blocks.   Journal agricultural, biological, environmental     statistics, 6, 367--378.   https://doi.org/10.1198/108571101317096578","code":""},{"path":"/reference/ivins.herbs.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"","code":"if (FALSE) {  library(agridat) data(ivins.herbs) dat <- ivins.herbs  # Nettle is primarily established in legumes. libs(lattice) xyplot(herb~nettle|gen, dat, main=\"ivins.herbs - herb yield vs weeds\",        xlab=\"Percent groundcover in nettles\",        ylab=\"Percent groundcover in herbs\")  # O'Brien used first 7 species to test gen differences dat7 <- droplevels(subset(dat, is.element(gen, c('G01','G02','G03','G04','G05','G06','G07')))) m1 <- lm(herb ~ gen + block, data=dat7) anova(m1) # gen p-value is .041 ## Response: herb ##           Df  Sum Sq Mean Sq F value  Pr(>F) ## gen        6 1083.24 180.540  2.5518 0.04072 * ## block      5  590.69 118.138  1.6698 0.17236 ## Residuals 30 2122.48  70.749  friedman.test(herb ~ gen|block, dat7) # gen p-value .056  }"},{"path":"/reference/iyer.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of wheat in India — iyer.wheat.uniformity","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"Uniformity trials wheat India.","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"","code":"data(\"iyer.wheat.uniformity\")"},{"path":"/reference/iyer.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"data frame 2000 observations following 3 variables. row row col column yield yield, ounces per plot","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"Data collected Agricultural Sub-station Karnal, India,   April 1978. net area 400 ft x 125 ft harvested dividing   80x25 units 5 ft x 5 ft eliminating minimum border 3.5   ft around net area. Field width: 80 plots * 5 feet = 400 feet Field length: 25 rows * 5 feet = 125 feet second paper, Iyer used data compare random vs. balanced   arrangements treatments plots, conclusion   \"difficult say [method] better. However,   tendency randomized arrangements give accurate results.\"","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"P. V. Krishna Iyer (1942).   Studies wheat uniformity trial data. . Size shape   experimental plots relative efficiency different layouts.   Indian Journal Agricultural Science, 12, 240-262. Page 259-262.    https://archive.org/stream/.ernet.dli.2015.7638/2015.7638.-Indian-Journal--Agricultural-Science-Vol-xii-1942#page/n267/mode/2up","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"None.","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(iyer.wheat.uniformity) dat <- iyer.wheat.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         main=\"iyer.wheat.uniformity\", tick=TRUE,          aspect=(25*5)/(80*5)) # true aspect  # not exactly the same as Iyer table 1, p. 241 var(subset(dat, col <= 20)$yield) var(subset(dat, col > 20 & col <= 40)$yield) var(subset(dat, col > 40 & col <= 60)$yield) var(subset(dat, col > 60)$yield)    # cv for 1x1 whole-field # sd(dat$yield)/mean(dat$yield) # 18.3  }"},{"path":"/reference/jansen.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Infestation of apple shoots by apple canker. — jansen.apple","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"Infestation apple shoots apple canker.","code":""},{"path":"/reference/jansen.apple.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"","code":"data(\"jansen.apple\")"},{"path":"/reference/jansen.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"data frame 36 observations following 5 variables. inoculum inoculum level gen genotype/variety block block y number inoculations developing canker n number inoculations","code":""},{"path":"/reference/jansen.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"Shoots apple trees infected fungus Nectria     galligena, may cause apple canker. incoulum density treatment 3 levels, measured macroconidia   per ml. 4 blocks. Used permission J. Jansen. Electronic version supplied Miroslav Zoric.","code":""},{"path":"/reference/jansen.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"J. Jansen & J.. Hoekstra (1993).   analysis proportions agricultural experiments   generalized linear mixed model.    Statistica Neerlandica, 47(3), 161-174.   https://doi.org/10.1111/j.1467-9574.1993.tb01414.x","code":""},{"path":"/reference/jansen.apple.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"None.","code":""},{"path":"/reference/jansen.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"","code":"if (FALSE) {  library(agridat) data(jansen.apple) dat <- jansen.apple  libs(lattice) xyplot(inoculum ~ y/n|gen, data=dat, group=block,        layout=c(3,1),        main=\"jansen.apple\",        xlab=\"Proportion infected per block/inoculum\",        ylab=\"Inoculum level\")  ## libs(lme4) ## # Tentative model.  Needs improvement. ## m1 <- glmer(cbind(y,n-y) ~ gen + factor(inoculum) + (1|block), ##             data=dat, family=binomial) ## summary(m1)  }"},{"path":"/reference/jansen.carrot.html","id":null,"dir":"Reference","previous_headings":"","what":"Infestation of carrots by fly larvae — jansen.carrot","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"Infestation 16 carrot genotypes fly larvae, comparing 2   treatments 16 blocks.","code":""},{"path":"/reference/jansen.carrot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"","code":"data(\"jansen.carrot\")"},{"path":"/reference/jansen.carrot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"data frame 96 observations following 5 variables. trt treatment gen genotype block block n number carrots sampled per plot y number carrots infested per plot","code":""},{"path":"/reference/jansen.carrot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"experiment designed compare different genotypes carrots   respect resistance infestation larvae   carrotfly. 16 genotypes, 2 levels pest-control treatments, conducted   3 randomized complete blocks.  50 carrots sampled   plot evaluated.  data show number carrots   number infested fly larvae. Used permission J. Jansen. Electronic version supplied Miroslav Zoric.","code":""},{"path":"/reference/jansen.carrot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"J. Jansen & J.. Hoekstra (1993).   analysis proportions agricultural experiments   generalized linear mixed model.    Statistica Neerlandica, 47(3), 161-174.   https://doi.org/10.1111/j.1467-9574.1993.tb01414.x","code":""},{"path":"/reference/jansen.carrot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"None.","code":""},{"path":"/reference/jansen.carrot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"","code":"if (FALSE) {  library(agridat) data(jansen.carrot) dat <- jansen.carrot  libs(lattice) dotplot(gen ~ y/n, data=dat, group=trt, auto.key=TRUE,         main=\"jansen.carrot\",         xlab=\"Proportion of carrots infected per block\", ylab=\"Genotype\")    # Not run because CRAN wants < 5 seconds per example.  This is close.   libs(lme4)   # Tentative model.  Needs improvement.   m1 <- glmer(cbind(y,n-y) ~ gen*trt + (1|block),               data=dat, family=binomial)   summary(m1)   # Todo: Why are these results different from Jansen?   # Maybe he used ungrouped bernoulli data?  Too slow with 4700 obs   }"},{"path":"/reference/jansen.strawberry.html","id":null,"dir":"Reference","previous_headings":"","what":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"Ordered disease ratings strawberry crosses.","code":""},{"path":"/reference/jansen.strawberry.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"","code":"data(\"jansen.strawberry\")"},{"path":"/reference/jansen.strawberry.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"data frame 144 observations following 5 variables. male male parent female female parent block block category disease damage, C1 < C2 < C3 count number plants category","code":""},{"path":"/reference/jansen.strawberry.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"strawberries, red core disease caused fungus,   Phytophtora fragariae.  experiment evaluated different   populations damage caused red core disease. 3 male strawberry plants 4 DIFFERENT female strawberry   plants crossed create 12 populations.   Note: Jansen labeled male parents 1,2,3 female parents   1,2,3,4.  reduce confusion, data labels female parents 5,6,7,8. experiment four blocks 12 plots (one   population).  Plots usually 10 plants, plots 9   plants.  plant assessed damage fungus rated   belonging category C1, C2, C3 (increasing damage). Used permission Hans Jansen.","code":""},{"path":"/reference/jansen.strawberry.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"J. Jansen, 1990.   statistical analysis ordinal data extravariation present.   Applied Statistics, 39, 75-84, Table 1.   https://doi.org/10.2307/2347813","code":""},{"path":"/reference/jansen.strawberry.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"","code":"if (FALSE) {  library(agridat)  data(jansen.strawberry) dat <- jansen.strawberry dat <- transform(dat, category=ordered(category, levels=c('C1','C2','C3')))  dtab <- xtabs(count ~ male + female + category, data=dat) ftable(dtab)  mosaicplot(dtab,            color=c(\"lemonchiffon1\",\"lightsalmon1\",\"indianred\"),            main=\"jansen.strawberry disease ratings\",            xlab=\"Male parent\", ylab=\"Female parent\")  libs(MASS,vcd) # Friendly suggests a minimal model is [MF][C] # m1 <- loglm( ~ 1*2 + 3, dtab) # Fails, only with devtools # mosaic(m1)  }"},{"path":"/reference/jayaraman.bamboo.html","id":null,"dir":"Reference","previous_headings":"","what":"Bamboo progeny trial — jayaraman.bamboo","title":"Bamboo progeny trial — jayaraman.bamboo","text":"Bamboo progeny trial 2 locations, 3 blocks","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Bamboo progeny trial — jayaraman.bamboo","text":"","code":"data(\"jayaraman.bamboo\")"},{"path":"/reference/jayaraman.bamboo.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Bamboo progeny trial — jayaraman.bamboo","text":"data frame 216 observations following 5 variables. loc location factor block block factor tree tree factor family family factor height height, cm","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Bamboo progeny trial — jayaraman.bamboo","text":"Data replicated trial bamboo two locations Kerala,   India.  location 3 blocks.  block 6 families,   6 trees family.","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Bamboo progeny trial — jayaraman.bamboo","text":"K. Jayaraman (1999). \"Statistical Manual Forestry Research\".   Forestry Research Support Programme Asia Pacific. Page 170.","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Bamboo progeny trial — jayaraman.bamboo","text":"None","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Bamboo progeny trial — jayaraman.bamboo","text":"","code":"if (FALSE) {   library(agridat)   data(jayaraman.bamboo)   dat <- jayaraman.bamboo    # very surprising differences between locations   libs(lattice)   bwplot(height ~ family|loc, dat, main=\"jayaraman.bamboo\")   # match Jayarman's anova table 6.3, page 173   # m1 <- aov(height ~ loc+loc:block + family + family:loc +   #  family:loc:block, data=dat)   # anova(m1)    # more modern approach with mixed model, match variance components needed   # for equation 6.9, heritability of the half-sib averages as   m2 <- lme4::lmer(height ~ 1 + (1|loc/block) + (1|family/loc/block), data=dat)   lucid::vc(m2) }"},{"path":"/reference/jegorow.oats.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Uniformity trial oats Russia","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"","code":"data(\"jegorow.oats.uniformity\")"},{"path":"/reference/jegorow.oats.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"data frame 240 observations following 3 variables. row row ordinate col column ordinate yield yield per plot, kg","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Sumskaya (Ssumy?) agricultural experimental station (Kharkov   Governorate), field planted April 1908 harvested   summer plots 1 sazhen sqauare.  'sazhen' 7 feet. Field width: 8 plots * 1 sazhen Field length: 30 plots * 1 sazhen Data typed K.Wright Roemer (1920), table 10.","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Jegorow, M. (1909).   Zur Methodik des feldversuches.   Russian Journ Expt Agric, 10, 502-520.   uniformity trial oats.    https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/510jAQAAIAAJ?hl=en","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180. Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"","code":"if (FALSE) {   library(agridat)      data(jegorow.oats.uniformity)   dat <- jegorow.oats.uniformity      mean(dat$yield) # Jegorow reports 2.03    libs(desplot)   desplot(dat, yield~col*row,            aspect=10/24, flip=TRUE, tick=TRUE,           main=\"jegorow.oats.uniformity\") }"},{"path":"/reference/jenkyn.mildew.html","id":null,"dir":"Reference","previous_headings":"","what":"Yields from treatment for mildew control — jenkyn.mildew","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"Yields treatment mildew control","code":""},{"path":"/reference/jenkyn.mildew.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"data frame 38 observations following 4 variables. plot plot number trt treatment factor, 4 levels block block factor, 9 levels yield grain yield, tons/ha","code":""},{"path":"/reference/jenkyn.mildew.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"four spray treatments: 0 (none), 1 (early), 2 (late), R   (repeated). treatment occurs 9 ordered pairs   treatments. first last plot assigned block.","code":""},{"path":"/reference/jenkyn.mildew.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"Norman Draper Irwin Guttman (1980).   Incorporating Overlap Effects Neighboring Units Response   Surface Models.   Appl Statist, 29, 128--134.   https://doi.org/10.2307/2986297","code":""},{"path":"/reference/jenkyn.mildew.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"Maria Durban, Christine Hackett, Iain Currie.   Blocks, Trend Interference Field Trials.","code":""},{"path":"/reference/jenkyn.mildew.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"","code":"if (FALSE) {  library(agridat) data(jenkyn.mildew) dat <- jenkyn.mildew  libs(lattice) bwplot(yield ~ trt, dat, main=\"jenkyn.mildew\", xlab=\"Treatment\")  # Residuals from treatment model show obvious spatial trends m0 <- lm(yield ~ trt, dat) xyplot(resid(m0)~plot, dat, ylab=\"Residual\",        main=\"jenkyn.mildew - treatment model\")  # The blocks explain most of the variation m1 <- lm(yield ~ trt + block, dat) xyplot(resid(m1)~plot, dat, ylab=\"Residual\",        main=\"jenkyn.mildew - block model\")  }"},{"path":"/reference/john.alpha.html","id":null,"dir":"Reference","previous_headings":"","what":"Alpha lattice design of spring oats — john.alpha","title":"Alpha lattice design of spring oats — john.alpha","text":"Alpha lattice design spring oats","code":""},{"path":"/reference/john.alpha.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Alpha lattice design of spring oats — john.alpha","text":"data frame 72 observations following 5 variables. plot plot number rep replicate block incomplete block gen genotype (variety) yield dry matter yield (tonnes/ha) row Row ordinate col Column ordinate","code":""},{"path":"/reference/john.alpha.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Alpha lattice design of spring oats — john.alpha","text":"spring oats trial grown Craibstone, near Aberdeen.   24 varieties 3 replicates, consisting   6 incomplete blocks 4 plots.  Planted resolvable   alpha design. Caution: Note table page 146 John & Williams (1995)   physical layout.  plots laid single line.","code":""},{"path":"/reference/john.alpha.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Alpha lattice design of spring oats — john.alpha","text":"J. . John & E. R. Williams (1995).   Cyclic computer generated designs.   Chapman Hall, London.  Page 146.","code":""},{"path":"/reference/john.alpha.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Alpha lattice design of spring oats — john.alpha","text":"Piepho, H.P. Mohring, J. (2007),   Computing heritability selection response unbalanced   plant breeding trials.   Genetics, 177, 1881-1888.   https://doi.org/10.1534/genetics.107.074229 Paul Schmidt, Jens Hartung, Jörn Bennewitz, Hans-Peter Piepho   (2019).   Heritability Plant Breeding Genotype-Difference Basis.   Genetics, 212, 991-1008.   https://doi.org/10.1534/genetics.119.302134","code":""},{"path":"/reference/john.alpha.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Alpha lattice design of spring oats — john.alpha","text":"","code":"if (FALSE) {    library(agridat)   data(john.alpha)   dat <- john.alpha      # RCB (no incomplete block)   m0 <- lm(yield ~ 0 + gen + rep, data=dat)    # Block fixed (intra-block analysis) (bottom of table 7.4 in John)   m1 <- lm(yield ~ 0 + gen + rep + rep:block, dat)   anova(m1)    # Block random (combined inter-intra block analysis)   libs(lme4, lucid)   m2 <- lmer(yield ~ 0 + gen + rep + (1|rep:block), dat)    anova(m2)   ## Analysis of Variance Table   ##     Df Sum Sq Mean Sq  F value   ## gen 24 380.43 15.8513 185.9942   ## rep  2   1.57  0.7851   9.2123   vc(m2)   ##        grp        var1 var2    vcov  sdcor   ##  rep:block (Intercept) <NA> 0.06194 0.2489   ##   Residual        <NA> <NA> 0.08523 0.2919     # Variety means.  John and Williams table 7.5.  Slight, constant   # difference for each method as compared to John and Williams.   means <- data.frame(rcb=coef(m0)[1:24],                       ib=coef(m1)[1:24],                       intra=fixef(m2)[1:24])   head(means)   ##             rcb       ib    intra   ## genG01 5.201233 5.268742 5.146433   ## genG02 4.552933 4.665389 4.517265   ## genG03 3.381800 3.803790 3.537934   ## genG04 4.439400 4.728175 4.528828   ## genG05 5.103100 5.225708 5.075944   ## genG06 4.749067 4.618234 4.575394      libs(lattice)   splom(means, main=\"john.alpha - means for RCB, IB, Intra-block\")       # ----------   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)    # Heritability calculation of Piepho & Mohring, Example 1          m3 <- asreml(yield ~ 1 + rep, data=dat, random=~ gen + rep:block)     sg2 <- summary(m3)$varcomp['gen','component'] # .142902          # Average variance of a difference of two adjusted means (BLUP)          p3 <- predict(m3, data=dat, classify=\"gen\", sed=TRUE)     # Matrix of pair-wise SED values, squared     vdiff <- p3$sed^2     # Average variance of two DIFFERENT means (using lower triangular of vdiff)     vblup <- mean(vdiff[lower.tri(vdiff)]) # .05455038          # Note that without sed=TRUE, asreml reports square root of the average variance     # of a difference between the variety means, so the following gives the same value     # predict(m3, data=dat, classify=\"gen\")$avsed ^ 2 # .05455038          # Average variance of a difference of two adjusted means (BLUE)     m4 <- asreml(yield ~ 1 + gen + rep, data=dat, random = ~ rep:block)     p4 <- predict(m4, data=dat, classify=\"gen\", sed=TRUE)     vdiff <- p4$sed^2     vblue <- mean(vdiff[lower.tri(vdiff)]) # .07010875     # Again, could use predict(m4, data=dat, classify=\"gen\")$avsed ^ 2          # H^2 Ad-hoc measure of heritability     sg2 / (sg2 + vblue/2) # .803          # H^2c Similar measure proposed by Cullis.     1-(vblup / (2*sg2)) # .809   }    # ----------   # lme4 to calculate Cullis H2   # https://stackoverflow.com/questions/38697477      libs(lme4)      cov2sed <- function(x){     # Convert var-cov matrix to SED matrix     # sed[i,j] = sqrt( x[i,i] + x[j,j]- 2*x[i,j] )     n <- nrow(x)     vars <- diag(x)     sed <- sqrt( matrix(vars, n, n, byrow=TRUE) +                    matrix(vars, n, n, byrow=FALSE) - 2*x )     diag(sed) <- 0     return(sed)   }      # Same as asreml model m4. Note 'gen' must be first term   m5blue <- lmer(yield ~ 0 + gen + rep + (1|rep:block), dat)      libs(emmeans)   ls5blue <- emmeans(m5blue, \"gen\")   con <- ls5blue@linfct[,1:24] # contrast matrix for genotypes   # The 'con' matrix is identity diagonal, so we don't need to multiply,   # but do so for a generic approach   # sed5blue <- cov2sed(con    tmp <- tcrossprod( crossprod(t(con), vcov(m5blue)[1:24,1:24]), con)   sed5blue <- cov2sed(tmp)       # vblue Average variance of difference between genotypes   vblue <- mean(sed5blue[upper.tri(sed5blue)]^2)   vblue # .07010875 matches 'vblue' from asreml      # Now blups   m5blup <- lmer(yield ~ 0 + (1|gen) + rep + (1|rep:block), dat)   # Need lme4::ranef in case ordinal is loaded   re5 <- lme4::ranef(m5blup,condVar=TRUE)   vv1 <- attr(re5$gen,\"postVar\")     vblup <- 2*mean(vv1) # .0577 not exactly same as 'vblup' above   vblup      # H^2 Ad-hoc measure of heritability   sg2 <- c(lme4::VarCorr(m5blup)[[\"gen\"]])  # 0.142902   sg2 / (sg2 + vblue/2) # .803 matches asreml    # H^2c Similar measure proposed by Cullis.   1-(vblup / 2 / sg2) # .809 from asreml, .800 from lme4       # ----------   # Sommer to calculate Cullis H2   libs(sommer)   m2.ran <- mmer(fixed  = yield ~ rep,                  random =       ~ gen + rep:block,                  data   = dat)      vc_g     <- m2.ran$sigma$gen       # genetic variance component   n_g      <- n_distinct(dat$gen)    # number of genotypes   C22_g    <- m2.ran$PevU$gen$yield  # Prediction error variance matrix for genotypic BLUPs   trC22_g  <- sum(diag(C22_g))       # trace   # Mean variance of a difference between genotypic BLUPs. Smith eqn 26   # I do not see the algebraic reason for this...2   av2 <- 2/n_g * (trC22_g - (sum(C22_g)-trC22_g) / (n_g-1))                            ### H2 Cullis   1-(av2 / (2 * vc_g)) #0.8091  }"},{"path":"/reference/johnson.blight.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato blight due to weather in Prosser, Washington — johnson.blight","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"Potato blight due weather Prosser, Washington","code":""},{"path":"/reference/johnson.blight.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"data frame 25 observations following 6 variables. year year area area affected, hectares blight blight detected, 0/1 numeric rain.number rainy days April May rain.ja number rainy days July August precip.m precipitation May temp > 5C, milimeters","code":""},{"path":"/reference/johnson.blight.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"variable 'blight detected' 1 'area' > 0.","code":""},{"path":"/reference/johnson.blight.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"Johnson, D.. Alldredge, J.R. Vakoch, D.L. (1996).   Potato late blight forecasting models semiarid environment   south-central Washington. Phytopathology, 86, 480--484.   https://doi.org/10.1094/Phyto-86-480","code":""},{"path":"/reference/johnson.blight.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"Vinayanand Kandala,   Logistic Regression","code":""},{"path":"/reference/johnson.blight.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"","code":"if (FALSE) {  library(agridat) data(johnson.blight) dat <- johnson.blight  # Define indicator for blight in previous year dat$blight.prev[2:25] <- dat$blight[1:24] dat$blight.prev[1] <- 0 # Need this to match the results of Johnson dat$blight.prev <- factor(dat$blight.prev) dat$blight <- factor(dat$blight)  # Johnson et al developed two logistic models to predict outbreak of blight  m1 <- glm(blight ~ blight.prev + rain.am + rain.ja, data=dat, family=binomial) summary(m1) ##              Estimate Std. Error z value Pr(>|z|) ## (Intercept)  -11.4699     5.5976  -2.049   0.0405 * ## blight.prev1   3.8796     1.8066   2.148   0.0318 * ## rain.am        0.7162     0.3665   1.954   0.0507 . ## rain.ja        0.2587     0.2468   1.048   0.2945 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## (Dispersion parameter for binomial family taken to be 1)  ##     Null deviance: 34.617  on 24  degrees of freedom ## Residual deviance: 13.703  on 21  degrees of freedom ## AIC: 21.703    m2 <- glm(blight ~ blight.prev + rain.am + precip.m, data=dat, family=binomial) summary(m2) ##              Estimate Std. Error z value Pr(>|z|) ## (Intercept)   -7.5483     3.8070  -1.983   0.0474 * ## blight.prev1   3.5526     1.6061   2.212   0.0270 * ## rain.am        0.6290     0.2763   2.276   0.0228 * ## precip.m      -0.0904     0.1144  -0.790   0.4295 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## (Dispersion parameter for binomial family taken to be 1)  ##     Null deviance: 34.617  on 24  degrees of freedom ## Residual deviance: 14.078  on 21  degrees of freedom ## AIC: 22.078  libs(lattice) splom(dat[,c('blight','rain.am','rain.ja','precip.m')],       main=\"johnson.blight - indicator of blight\")  }"},{"path":"/reference/johnson.douglasfir.html","id":null,"dir":"Reference","previous_headings":"","what":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"study small-plots old-growth Douglas Fir Oregon.","code":""},{"path":"/reference/johnson.douglasfir.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"","code":"data(\"johnson.douglasfir\")"},{"path":"/reference/johnson.douglasfir.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"data frame 1600 observations following 3 variables. row row col column volume volume per plot","code":""},{"path":"/reference/johnson.douglasfir.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"study 40 acres old-growth Douglas-Fir near Eugene, Oregon.   area divided 40--40 grid plots, 1/40 acre.   volume represents total timber volume (Scribner Decimal C)   1/40 acre plot. authors conclude 1-chain 3-chain 3/10 acre rectangle   efficient intensive cruise work. convert plot volume total volume per acre, multiply 40 (  plot 1/40 acre) multiply 10 (correction Scribner scale).","code":""},{"path":"/reference/johnson.douglasfir.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"Floyd . Johnson, Homer J. Hixon. (1952).   efficient size shape plot use cruising   old-growth Douglas-fir timber.   Jour. Forestry, 50, 17-20.   https://doi.org/10.1093/jof/50.1.17","code":""},{"path":"/reference/johnson.douglasfir.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"None","code":""},{"path":"/reference/johnson.douglasfir.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"","code":"library(agridat) data(johnson.douglasfir) dat <- johnson.douglasfir  # Average volume per acre. Johnson & Hixon give 91000. # Transcription may have some errors...the pdf was blurry. mean(dat$volume) * 400 #> [1] 91124.25 # 91124   libs(lattice) levelplot(volume ~ col*row, dat, main=\"johnson.douglasfir\", aspect=1)  histogram( ~ volume, data=dat, main=\"johnson.douglasfir\")"},{"path":"/reference/jones.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn. — jones.corn.uniformity","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"Uniformity trial corn Iowa 2016.","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"","code":"data(\"jones.corn.uniformity\")"},{"path":"/reference/jones.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"data frame 144 observations following 3 variables. col column ordinate row row ordinate yield yield, bu/ac","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"data corresponds field \"ISU.SE\" paper Jones. Field width: 12 columns, 4.6 meters . Field length: 12 rows, 3 meters . Electronic version provided online supplement.  \"row\"   \"col\" variables supplement swapped   presentation data order consistent   figures paper. electronic supplemental data bu/ac, paper uses   kg/ha. Used permission Marcus Jones.","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"Jones, M., Harbur, M., & Moore, K. J. (2021).   Automating Uniformity Trials Optimize Precision Agronomic Field   Trials.    Agronomy, 11(6), 1254.   https://doi.org/10.3390/agronomy11061254","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"None","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"","code":"if (FALSE) { library(agridat) data(jones.corn.uniformity) dat <- jones.corn.uniformity library(desplot) # Compare to figure 5 of Jones et al. desplot(dat, yield ~ col*row,         aspect=(12*4.6)/(12*3),         main=\"jones.corn.uniformity\") }"},{"path":"/reference/jurowski.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"Uniformity trial wheat Russia","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"","code":"data(\"jurowski.wheat.uniformity\")"},{"path":"/reference/jurowski.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"data frame 480 observations following 3 variables. row row ordinate col column ordinate yield yield, Pud per plot","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"experiment conducted Russia Ofrossimowka. word   \"Ofrossimowka\" appeared German text Sapehin,   otherwise extremely difficult find.  may alternate ways   actual Russian name translated German/English. Likewise, name \"Jurowski\" difficult find may   transliterations. Sapehin gives original source :   Arbeiten d. Vers.-St. d. Russ. Ges. f. Zuckerind. 1913.   may expand   Arbeiten der Versuchsstationen der Russ. Ges. f. Zuckerindustrie. 1913. Sepehin appendix says plot size \"4 x 12 m^2\".   clear plot dimension 4 m 12 m.   4m wide 12m tall, field 48m wide x 480m long.   4m tall 12m wide, field 144m wide x 160m long. seems   much likely. Sapehin says std dev \"21.8 pud\".  \"pud\" Russian unit   weight equal 16.38 kilograms. Data converted OCR Sapehin hand-checked K.Wright.","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"Sapěhin, . . (1927).   Beiträge zur Methodik des Feldversuches.   Die Landwirtschaflichen Versuchsstationen, 105, 243-259.   https://www.google.com/books/edition/Die_Landwirthschaftlichen_Versuchs_Stati/cLZGAAAAYAAJ?hl=en&pg=PA243","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"None","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(jurowski.wheat.uniformity)   dat <- jurowski.wheat.uniformity      sd(dat$yield)   libs(desplot)   desplot(dat, yield~col*row,           aspect=(40*4)/(12*12), flip=TRUE, tick=TRUE,           main=\"jurowski.wheat.uniformity\") }"},{"path":"/reference/kadam.millet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of millet — kadam.millet.uniformity","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"Uniformity trial millet India 2 years","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"","code":"data(\"kadam.millet.uniformity\")"},{"path":"/reference/kadam.millet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"data frame 240 observations following 4 variables. year year row row col column yield yield, ounces","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"Uniformity trials conducted kharip (monsoon) seasons   1933 1934 Kundewadi, Niphad, district Nasik,   India. Bajari (pearl millet) strain 54 used. 1933: Field width: 8 plots * 16.5 feet Field length: 10 plots * 33 feet 1934: Field width: 8 plots * 16.5 feet Field length: 20 plots * 16.5 feet","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"B. S. Kadam S. M. Patel. (1937).   Studies Field-Plot Technique P. Typhoideum Rich.   Empire Journal Experimental Agriculture, 5, 219-230.   https://archive.org/details/.ernet.dli.2015.25282","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"None.","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(kadam.millet.uniformity)   dat <- kadam.millet.uniformity      # similar to Kadam fig 1   libs(desplot)   desplot(dat, yield ~ col*row,           subset=year==1933,           flip=TRUE, aspect=(10*33)/(8*16.5), # true aspect           main=\"kadam.millet.uniformity 1933\")    desplot(dat, yield ~ col*row,           subset=year==1934,           flip=TRUE, aspect=(20*16.5)/(8*16.5), # true aspect           main=\"kadam.millet.uniformity 1934\")    }"},{"path":"/reference/kalamkar.potato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of potatoes — kalamkar.potato.uniformity","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"Uniformity trial potatoes Saskatchewan, Canada, 1929.","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"","code":"data(\"kalamkar.potato.uniformity\")"},{"path":"/reference/kalamkar.potato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"data frame 576 observations following 3 variables. row row col column yield yield, pounds per plot","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"data potato yields 96 rows, 132 feet long, 3   feet rows. row harvested six plots, 22 feet long.  hill   one seed piece.  Hills spaced 2 feet apart row. Field width: 6 plots * 22 feet = 132 feet Field length: 96 rows * 3 feet = 288 feet Units yield given.  experiment, 22   plants per plot. Today potato plants yield 3-5 pounds.   assume experiment yield 2 pound per plant,   22 pounds per plot, similar data   values. Also, Kirk 1929 mentions \"200 bushels per acre\", 22 pounds   per plot x (43560/66) divided (60 pounds per bushel) = 242,   seems reasonable.  Also `kirk.potato` data author   recorded pounds per plot.","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"Kalamkar, R.J. (1932).   Experimental Error Field-Plot Technique Potatoes.   Journal Agricultural Science, 22, 373-385.   https://doi.org/10.1017/S0021859600053697","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"Kirk, L. E. (1929)   Field plot technique potatoes special reference Latin   square.   Scientific Agriculture, 9, 719.   https://cdnsciencepub.com/doi/10.4141/sa-1929-0067   https://doi.org/10.4141/sa-1929-0067   https://www.google.com/books/edition/Revue_Agronomique_Canadien/-gMkAQAAMAAJ","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(kalamkar.potato.uniformity) dat <- kalamkar.potato.uniformity  # Similar to figure 1 of Kalamkar libs(desplot) desplot(dat, yield~col*row,         flip=TRUE, tick=TRUE, aspect=288/132, # true aspect         main=\"kalamkar.potato.uniformity\")    }"},{"path":"/reference/kalamkar.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — kalamkar.wheat.uniformity","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"Uniformity trial wheat Rothamsted, UK 1931.","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"","code":"data(\"kalamkar.wheat.uniformity\")"},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"data frame 1280 observations following 4 variables. row row col column yield yield, grams/half-meter ears ears per half-meter","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"Kalamkar's paper published 1932. Estimated crop year 1931. Plot 18 Four Course Rotation Experiment, Great Hoos,   Rothamsted, UK used.  Sown Yeoman II wheat. Field width = 16 segments * 0.5 meters = 8 meters. Field length: 80 rows * 6 inches apart = 40 feet. grain yield number ears half-meter length   recorded. quite small field, 1/40 acre size. Edge rows higher yields. Row-end units higher yields   interior units.  border effects significant. Variation   rows greater variation within rows. Negative   correlation rows may indicate competition effects. ears, Kalamkar discarded 4 rows side 3 half-meter lengths end. Kalamkar suggested using four parallel half-meter rows sampling unit. Note, Rothamsted report 1931, page 57, says:   year three workers (F. R. Immer, S. H. Justensen   R. J. Kalamkar) taken question efficient use   land experiments edge row must discarded...","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"Kalamkar, R. J (1932).   Study Sampling Technique Wheat.   Journal Agricultural Science, Vol.22(4), pp.783-796.   https://doi.org/10.1017/S0021859600054599","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"None.","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(kalamkar.wheat.uniformity)   dat <- kalamkar.wheat.uniformity      plot(yield ~ ears, dat, main=\"kalamkar.wheat.uniformity\")      # totals match Kalamkar   # sum(dat$yield) # 24112.5   # sum(dat$ears) # 25850      libs(desplot)   desplot(dat, ears ~ col*row,           flip=TRUE, aspect=(80*0.5)/(16*1.64042), # true aspect           main=\"kalamkar.wheat.uniformity - ears\")   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(80*0.5)/(16*1.64042), # true aspect           main=\"kalamkar.wheat.uniformity - yield\")      # ----------      if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)          # Show the negative correlation between rows     dat <- transform(dat,                      rowf=factor(row), colf=factor(col))     dat <- dat[order(dat$rowf, dat$colf),]     m1 = asreml(yield ~ 1, data=dat, resid= ~ ar1(rowf):ar1(colf))     lucid::vc(m1)     ##             effect component std.error z.ratio bound pctch     ##        rowf:colf!R  81.53      3.525      23       P 0       ## rowf:colf!rowf!cor  -0.09464   0.0277     -3.4     U 0.1     ## rowf:colf!colf!cor   0.2976    0.02629    11       U 0.1   }    }"},{"path":"/reference/kang.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"Maize yields 4 locs 3 years Louisianna.","code":""},{"path":"/reference/kang.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"","code":"data(\"kang.maize\")"},{"path":"/reference/kang.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"gen genotype, 17 levels env environment, 12 levels yield yield, tonnes/ha environment environment, 13 levels year year, 85-87 loc location, 4 levels","code":""},{"path":"/reference/kang.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"Yield trials conducted four locations (Alexandria, Baton   Rouge, Bossier City, St. Joseph) Louisiana 1985 1987.   loc planted RCB design 4 reps.  Mean yields given   data. Used permission Dan Gorman.","code":""},{"path":"/reference/kang.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"Kang, MS Gorman, DP. (1989).   Genotype x environment interaction maize.   Agronomy Journal, 81, 662-664.  Table 2.","code":""},{"path":"/reference/kang.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"","code":"if (FALSE) {  library(agridat) data(kang.maize) dat <- kang.maize  # Sweep out loc means, then show interaction plot. libs(reshape2) mat <- acast(dat, gen~env, value.var='yield') mat <- sweep(mat, 2, colMeans(mat)) dat2 <- melt(mat) names(dat2) <- c('gen','env','yield') libs(lattice) xyplot(yield~env|gen, data=dat2, type='l', group=gen,        panel=function(x,y,...){          panel.abline(h=0,col=\"gray70\")          panel.xyplot(x,y,...)        },        ylab=\"Environment-centered yield\",        main=\"kang.maize - maize hybrid yields\", scales=list(x=list(rot=90)))   # Weather covariates for each environment. covs <- data.frame(env=c(\"AL85\",\"AL86\",\"AL87\", \"BR85\",\"BR86\",\"BR87\",                      \"BC85\",\"BC86\",\"BC87\", \"SJ85\",\"SJ86\",\"SJ87\"),                    maxt=c(30.7,30.2,29.7,31.5,29.4,28.5, 31.9, 30.4,31.7, 32,29.6,28.9),                    mint=c(18.7,19.3,18.5, 19.7,18,17.2, 19.1,20.4,20.3, 20.4,19.1,17.5),                    rain=c(.2,.34,.22, .28,.36,.61, .2,.43,.2, .36,.41,.22),                    humid=c(82.8,91.1,85.4, 88.1,90.9,88.6, 95.4,90.4,86.7, 95.6,89.5,85))  }"},{"path":"/reference/kang.peanut.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"Peanut yields 10 genotypes 15 environments","code":""},{"path":"/reference/kang.peanut.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"","code":"data(\"kang.peanut\")"},{"path":"/reference/kang.peanut.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"data frame 590 observations following 4 variables. gen genotype factor, 10 levels rep replicate factor, 4 levels yield yield env environment factor, 15 levels","code":""},{"path":"/reference/kang.peanut.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"Florman, Tegua, mf484, mf485, mf487, mf489 long crop cycle.   others short crop cycle. data also likely used Casanoves et al 2005,   \"Evaluation Multienvironment Trials Peanut Cultivars\",   appears slightly smaller subset (10 genotypes,   perhaps years 96,97,98,99).  Based d.f.   table 5, appears environment E13 grown 1998.   (5 loc * (4-1) = 15, table 14, 98-99 3 reps   instead 4 reps.) Data National Institute Agricultural Technology, Argentina.","code":""},{"path":"/reference/kang.peanut.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"M. S. Kang, M. Balzarini, J. L. L. Guerra   (2004). Genotype--environment   interaction\". : . Saxton (2004). \"Genetic Analysis Complex   Traits Using SAS\".","code":""},{"path":"/reference/kang.peanut.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"Johannes Forkman, Julie Josse, Hans-Peter Piepho (2019).   Hypothesis Tests Principal Component Analysis Variables Standardized.   JABES https://doi.org/10.1007/s13253-019-00355-5","code":""},{"path":"/reference/kang.peanut.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"","code":"if (FALSE) {  library(agridat) data(kang.peanut) dat <- kang.peanut  # Table 5.1 of Kang et al. (Chapter 5 of Saxton) libs(reshape2) Y0 <- acast(dat, env~gen, value.var='yield', fun=mean) round(Y0,2)  # GGE biplot of Kang, p. 82. libs(gge) m1 <- gge(dat, yield~gen*env, scale=FALSE) biplot(m1, flip=c(1,1), main=\"kang.peanut - GGE biplot\")  # Forkman 2019, fig 2 # m2 <- gge(dat, yield~gen*env, scale=TRUE) # biplot(m2, main=\"kang.peanut - GGE biplot\") # biplot(m2, comps=3:4, main=\"kang.peanut - GGE biplot\")  }"},{"path":"/reference/karcher.turfgrass.html","id":null,"dir":"Reference","previous_headings":"","what":"Turfgrass ratings for different treatments — karcher.turfgrass","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"Turfgrass ratings different treatments","code":""},{"path":"/reference/karcher.turfgrass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"data frame 128 observations following 6 variables. week week number rep blocking factor manage management factor, 4 levels nitro nitrogen factor, 2 levels rating turfgrass rating, 4 ordered levels count number samples given rating","code":""},{"path":"/reference/karcher.turfgrass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"Turf color assessed scale Poor, Average, Good, Excellent. data number times combination management style   nitrogen level received particular rating across four replicates   four sampling weeks.  eight treatments completely   randomized design. Nitrogen level 1 2.5 g/m^2, level 2 5 g/m^2. Management 1 = N applied supplemental water injection. M2 = surface applied supplemental water injection. M3 = nitrogen injected 7.6 cm deep M4 = nitrogen injected 12.7 cm deep.","code":""},{"path":"/reference/karcher.turfgrass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil     Sciences. CRC Press.  Page 380.","code":""},{"path":"/reference/karcher.turfgrass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"","code":"if (FALSE) {  library(agridat) data(karcher.turfgrass) dat <- karcher.turfgrass  dat$rating <- ordered(dat$rating, levels=c('Poor','Average', 'Good','Excellent'))  ftable(xtabs(~manage+nitro+rating, dat)) # Table 6.19 of Schabenberger  # Probably would choose management M3, nitro N2 mosaicplot(xtabs(count ~ manage + rating + nitro, dat),            shade=TRUE, dir=c('h','v','h'),            main=\"karcher.turfgrass - turfgrass ratings\")  # Multinomial logistic model.  Probit Ordered Logistic Regression. libs(MASS) m1 <- polr(rating ~ nitro*manage + week, dat, weights=count, Hess=TRUE, method='logistic') summary(m1)  # Try to match the \"predicted marginal probability distribution\" of # Schabenberger table 6.20.  He doesn't define \"marginal\". # Are the interaction terms included before aggregation? # Are 'margins' calculated before/after back-transforming? # At what level is the covariate 'week' included?  # Here is what Schabenberger presents: ##        M1   M2   M3   M4  |   N1  N2 ## Poor  .668 .827 .001 .004 | .279 .020 ## Avg   .330 .172 .297 .525 | .712 .826 ## Good  .002 .001 .695 .008 | .008 .153 ## Exc   .000 .000 .007 .003 | .001 .001  ## We use week=3.5, include interactions, then average newd <- expand.grid(manage=levels(dat$manage), nitro=levels(dat$nitro), week=3.5) newd <- cbind(newd, predict(m1, newdata=newd, type='probs')) # probs) print(aggregate( . ~ manage, data=newd, mean), digits=2) ##   manage nitro week   Poor Average    Good Excellent ## 1     M1   1.5  3.5 0.67      0.33 0.0011  0.0000023 ## 2     M2   1.5  3.5 0.76      0.24 0.00059 0.0000012 ## 3     M3   1.5  3.5 0.0023    0.48 0.52    0.0042 ## 4     M4   1.5  3.5 0.0086    0.57 0.42    0.0035  }"},{"path":"/reference/kayad.alfalfa.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"Yield monitor data 4 cuttings alfalfa Saudi Arabia.","code":""},{"path":"/reference/kayad.alfalfa.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"","code":"data(\"kayad.alfalfa\")"},{"path":"/reference/kayad.alfalfa.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"data frame 8628 observations following 4 variables. harvest harvest number lat latitude long longitude yield yield, tons/ha","code":""},{"path":"/reference/kayad.alfalfa.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"Data collected 23.5 ha field alfalfa Saudia Arabia.   field harvested four consecutive times (H8 = 5 Dec 2013, H9 = 16 Feb 2014, H10 = 2 Apr 2014, H11 = 6 May 2014).   Data collected using geo-referenced yield monitor.   Supporting information contains yield monitor data 4 hay harvests center-pivot field. # TODO: Normalize yields harvest, average together   # create productivity map. Two ways normalize:   # Normalize 0-100: ((mapValue - min) * 100) / (max - min)   # Standardize: ((mapValue - mean) / stdev) * 100","code":""},{"path":"/reference/kayad.alfalfa.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"Ahmed G. Kayad, et al. (2016).   Assessing Spatial Variability Alfalfa Yield Using Satellite Imagery Ground-Based Data.   PLOS One, 11(6).   https://doi.org/10.1371/journal.pone.0157166","code":""},{"path":"/reference/kayad.alfalfa.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"None","code":""},{"path":"/reference/kayad.alfalfa.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"","code":"library(agridat)   data(kayad.alfalfa)   dat <- kayad.alfalfa    # match Kayad table 1 stats   libs(dplyr) #>  #> Attaching package: ‘dplyr’ #> The following object is masked from ‘package:gridExtra’: #>  #>     combine #> The following object is masked from ‘package:MASS’: #>  #>     select #> The following object is masked from ‘package:nlme’: #>  #>     collapse #> The following objects are masked from ‘package:stats’: #>  #>     filter, lag #> The following objects are masked from ‘package:base’: #>  #>     intersect, setdiff, setequal, union   dat <- group_by(dat, harvest)   summarize(dat, min=min(yield), max=max(yield),             mean=mean(yield), stdev=sd(yield), var=var(yield)) #> # A tibble: 4 × 6 #>   harvest   min   max  mean stdev   var #>   <fct>   <dbl> <dbl> <dbl> <dbl> <dbl> #> 1 H10     0      6.68  2.86  1.24  1.55 #> 2 H11     0      9.96  4.01  1.69  2.85 #> 3 H8      0      5.86  2.32  1.01  1.03 #> 4 H9      0.191  5.97  2.45  1.07  1.14    # Figure 4 of Kayad   libs(latticeExtra)   catcols <- c(\"#cccccc\",\"#ff0000\",\"#ffff00\",\"#55ff00\",\"#0070ff\",\"#c500ff\",\"#73004c\")   levelplot(yield ~ long*lat |harvest, dat,             aspect=1, at = c(0,2,3,4,5,6,7,10), col.regions=catcols,             main=\"kayad.alfalfa\",             prepanel=prepanel.default.xyplot,             panel=panel.levelplot.points)     # Similar to Kayad fig 5.   ## levelplot(yield ~ long*lat |harvest, dat,   ##           prepanel=prepanel.default.xyplot,   ##           panel=panel.levelplot.points,   ##           col.regions=pals::brewer.reds)"},{"path":"/reference/keen.potatodamage.html","id":null,"dir":"Reference","previous_headings":"","what":"Damage to potato tubers from lifting rods. — keen.potatodamage","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"Damage potato tubers lifting rods.","code":""},{"path":"/reference/keen.potatodamage.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"","code":"data(\"keen.potatodamage\")"},{"path":"/reference/keen.potatodamage.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"data frame 1152 observations following 6 variables. energy energy factor weight weight class gen genotype/variety factor rod rod factor damage damage category count count tubers combination categories","code":""},{"path":"/reference/keen.potatodamage.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"Experiments performed Wageningen, Netherlands. Potatoes can damaged lifter.  experiment, eight   types lifting rod compared.  Two energy levels, six   genotypes/varieties three weight classes used.   combinations treatments involved 20 potato tubers.   Tubers rated undamaged (D1) severely damaged (D4). main interest differences rods,   interactions.  factors (besides rod) introduced   create variety experimental conditions interest. Keen Engle estimated following rod effects. # Rod: 1 2 3 4 5 6 7 8 # Effect: 0 -1.26 -0.42 0.55 -1.50 -1.85 -1.76 -2.09 Used permission Bas Engel.","code":""},{"path":"/reference/keen.potatodamage.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":". Keen B. Engel.   Analysis mixed model ordinal data iterative re-weighted REML.   Statistica Neerlandica, 51, 129--144. Table 2.   https://doi.org/10.1111/1467-9574.00044","code":""},{"path":"/reference/keen.potatodamage.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"R. Larsson & Jesper Ryden (2021).   Applications discrete factor analysis.   Communications Statistics - Simulation Computation.   https://doi.org/10.1080/03610918.2021.1964528","code":""},{"path":"/reference/keen.potatodamage.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"","code":"if (FALSE) {  library(agridat)  data(keen.potatodamage) dat <- keen.potatodamage  # Energy E1, Rod R4, Weight W1 have higher proportions of severe damage # Rod 8 has the least damage d2 <- xtabs(count~energy+rod+gen+weight+damage, data=dat) mosaicplot(d2, color=c(\"lemonchiffon1\",\"moccasin\",\"lightsalmon1\",\"indianred\"),            xlab=\"Energy / Genotype\", ylab=\"Rod / Weight\", main=\"keen.potatodamage\")   # Not run because CRAN prefers examples less than 5 seconds. libs(ordinal) # Note, the clmm2 function can have only 1 random term.  Results are # similar to Keen & Engle, but necessarily different (they had multiple # random terms). m1 <- clmm2(damage ~ rod + energy + gen + weight, data=dat,             weights=count, random=rod:energy, link='probit') round(coef(m1)[4:10],2) ## rodR2 rodR3 rodR4 rodR5 rodR6 rodR7 rodR8 ## -1.19 -0.41  0.50 -1.46 -1.73 -1.67 -1.99  # Alternative # m2 <- clmm(damage ~ rod + energy + gen + weight + #          (1|rod:energy), data=dat, weights=count, link='probit')  }"},{"path":"/reference/kempton.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — kempton.barley.uniformity","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"Uniformity trial barley Cambridge, England, 1978.","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"data frame 196 observations following 3 variables. row row col column yield grain yield, kg","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"uniformity trial spring barley planted 1978.  Conducted   Plant Breeding Institute Cambridge, England. plot 5 feet wide, 14 feet long. Field width: 7 plots * 14 feet = 98 feet Field length: 28 plots * 5 feet = 140 feet","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"R. . Kempton C. W. Howes (1981).   use neighbouring plot values analysis variety trials.   Applied Statistics, 30, 59--70.   https://doi.org/10.2307/2346657","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science. 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(kempton.barley.uniformity)   dat <- kempton.barley.uniformity    libs(desplot)   desplot(dat, yield~col*row,           aspect=140/98, tick=TRUE, # true aspect           main=\"kempton.barley.uniformity\")         # Kempton estimated auto-regression coefficients b1=0.10, b2=0.91      dat <- transform(dat, xf = factor(col), yf=factor(row))    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)        dat <- transform(dat, xf = factor(col), yf=factor(row))     m1 <- asreml(yield ~ 1, data=dat, resid = ~ar1(xf):ar1(yf))        # lucid::vc(m1)     ##       effect component std.error z.ratio bound      ##      xf:yf!R    0.1044   0.02197     4.7     P   0     ## xf:yf!xf!cor    0.2458   0.07484     3.3     U   0     ## xf:yf!yf!cor    0.8186   0.03821    21       U   0        # asreml estimates auto-regression correlations of 0.25, 0.82     # Kempton estimated auto-regression coefficients b1=0.10, b2=0.91   }      # ----------    if(0){     # Kempton defines 4 blocks, randomly assigns variety codes 1-49 in each block, fits     # RCB model, computes mean squares for variety and residual.  Repeat 40 times.     # Kempton's estimate: variety = 1032, residual = 1013     # Our estimate: variety = 825, residual = 1080     fitfun <- function(dat){       dat <- transform(dat, block=factor(ceiling(row/7)),                        gen=factor(c(sample(1:49),sample(1:49),sample(1:49),sample(1:49))))       m2 <- lm(yield*100 ~ block + gen, dat)       anova(m2)[2:3,'Mean Sq']     }     set.seed(251)     out <- replicate(50, fitfun(dat))     rowMeans(out) # 826 1079   }   }"},{"path":"/reference/kempton.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Sugar beet trial with competition effects — kempton.competition","title":"Sugar beet trial with competition effects — kempton.competition","text":"Yield sugar beets 36 varieties 3-rep RCB experiment.   Competition effects present.","code":""},{"path":"/reference/kempton.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Sugar beet trial with competition effects — kempton.competition","text":"data frame 108 observations following 5 variables. gen genotype, 36 levels rep rep, 3 levels row row col column yield yield, kg/plot","code":""},{"path":"/reference/kempton.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Sugar beet trial with competition effects — kempton.competition","text":"Entries grown 12m rows, 0.5m apart.  Guard rows grown   alongside replicate boundaries, yields plots   included.","code":""},{"path":"/reference/kempton.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Sugar beet trial with competition effects — kempton.competition","text":"R Kempton, 1982.   Adjustment competition varieties plant breeding trials,   Journal Agricultural Science, 98, 599-611.   https://doi.org/10.1017/S0021859600054381","code":""},{"path":"/reference/kempton.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Sugar beet trial with competition effects — kempton.competition","text":"","code":"if (FALSE) {    library(agridat)  data(kempton.competition) dat <- kempton.competition  # Raw means in Kempton table 2 round(tapply(dat$yield, dat$gen, mean),2)  # Fixed genotype effects, random rep effects, # Autocorrelation of neighboring plots within the same rep, phi = -0.22 libs(nlme) m1 <- lme(yield ~ -1+gen, random=~1|rep, data=dat,           corr=corAR1(form=~col|rep)) # Lag 1 autocorrelation is negative--evidence of competition plot(ACF(m1), alpha=.05, grid=TRUE, main=\"kempton.competition\",      ylab=\"Autocorrelation between neighborning plots\")  # Genotype effects round(fixef(m1),2)  # Variance of yield increases with yield plot(m1, main=\"kempton.competition\")  }"},{"path":"/reference/kempton.rowcol.html","id":null,"dir":"Reference","previous_headings":"","what":"Row-column experiment of wheat — kempton.rowcol","title":"Row-column experiment of wheat — kempton.rowcol","text":"Row-column experiment wheat, 35 genotypes, 2 reps.","code":""},{"path":"/reference/kempton.rowcol.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Row-column experiment of wheat — kempton.rowcol","text":"data frame 68 observations following 5 variables. rep replicate factor, 2 levels row row col column gen genotype factor, 35 levels yield yield","code":""},{"path":"/reference/kempton.rowcol.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Row-column experiment of wheat — kempton.rowcol","text":"Included illustrate REML analysis row-column design.","code":""},{"path":"/reference/kempton.rowcol.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Row-column experiment of wheat — kempton.rowcol","text":"R Kempton P N Fox,   Statistical Methods Plant Variety Evaluation,   Chapman Hall, 1997.","code":""},{"path":"/reference/kempton.rowcol.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Row-column experiment of wheat — kempton.rowcol","text":"","code":"if (FALSE) {  library(agridat) data(kempton.rowcol) dat <- kempton.rowcol dat <- transform(dat, rowf=factor(row), colf=factor(col))  libs(desplot) desplot(dat, yield~col*row|rep,         num=gen, out1=rep, # unknown aspect         main=\"kempton.rowcol\")   # Model with rep, row, col as random.  Kempton, page 62. # Use \"-1\" so that the vcov matrix doesn't include intercept libs(lme4) m1 <- lmer(yield ~ -1 + gen + rep + (1|rep:rowf) + (1|rep:colf), data=dat)  # Variance components match Kempton. print(m1, corr=FALSE)  # Standard error of difference for genotypes.  Kempton page 62, bottom. covs <- as.matrix(vcov(m1)[1:35, 1:35]) vars <- diag(covs) vdiff <- outer(vars, vars, \"+\") - 2 * covs sed <- sqrt(vdiff[upper.tri(vdiff)]) min(sed) # Minimum SED mean(sed) # Average SED max(sed) # Maximum SED  }"},{"path":"/reference/kempton.slatehall.html","id":null,"dir":"Reference","previous_headings":"","what":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"Yields Slate Hall Farm 1976 spring wheat trial.","code":""},{"path":"/reference/kempton.slatehall.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"data frame 150 observations following 5 variables. rep rep, 6 levels row row col column gen genotype, 25 levels yield yield (grams/plot)","code":""},{"path":"/reference/kempton.slatehall.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"trial balanced lattice 25 varieties 6 replicates,   10 ranges 15 columns.  plot size 1.5 meters 4 meters.   row within rep (incomplete) block. Field width: 15 columns * 1.5m = 22.5m Field length: 10 ranges * 4m = 40m","code":""},{"path":"/reference/kempton.slatehall.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"R Kempton P N Fox. (1997).   Statistical Methods Plant Variety Evaluation,   Chapman Hall.  Page 84. Julian Besag David Higdon. 1993.   Bayesian Inference Agricultural Field Experiments.   Bull. Int. Statist. Table 4.1.","code":""},{"path":"/reference/kempton.slatehall.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"Gilmour, Arthur R Robin Thompson Brian R Cullis. (1994).   Average Information REML: Efficient Algorithm Variance   Parameter Estimation Linear Mixed Models, Biometrics,   51, 1440-1450.","code":""},{"path":"/reference/kempton.slatehall.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"","code":"if (FALSE) {    library(agridat)   data(kempton.slatehall)   dat <- kempton.slatehall    # Besag 1993 figure 4.1 (left panel)   libs(desplot)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   desplot(dat, yield ~ col * row,           aspect=40/22.5, # true aspect           num=gen, out1=rep, col.regions=grays, # unknown aspect           main=\"kempton.slatehall - spring wheat yields\")    # ----------    # Incomplete block model of Gilmour et al 1995   libs(lme4, lucid)   dat <- transform(dat, xf=factor(col), yf=factor(row))   m1 <- lmer(yield ~ gen + (1|rep) + (1|rep:yf) + (1|rep:xf), data=dat)   vc(m1)   ##    groups        name variance stddev   ##  rep:xf   (Intercept)    14810 121.7   ##  rep:yf   (Intercept)    15600 124.9   ##  rep      (Intercept)     4262  65.29   ##  Residual                 8062  89.79         # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)        # Incomplete block model of Gilmour et al 1995     dat <- transform(dat, xf=factor(col), yf=factor(row))     m2 <- asreml(yield ~ gen, random = ~ rep/(xf+yf), data=dat)          lucid::vc(m2)     ##          effect component std.error z.ratio constr     ##     rep!rep.var      4262      6890    0.62    pos     ##  rep:xf!rep.var     14810      4865    3       pos     ##  rep:yf!rep.var     15600      5091    3.1     pos     ##      R!variance      8062      1340    6       pos          # Table 4     # asreml4     # predict(m2, data=dat, classify=\"gen\")$pvals   }    }"},{"path":"/reference/kenward.cattle.html","id":null,"dir":"Reference","previous_headings":"","what":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"Repeated measurements weights calves trial   control intestinal parasites.","code":""},{"path":"/reference/kenward.cattle.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"","code":"data(\"kenward.cattle\")"},{"path":"/reference/kenward.cattle.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"data frame 660 observations following 4 variables. animal animal factor trt treatment factor, B day day, numberic, 0-133 weight bodyweight, kg","code":""},{"path":"/reference/kenward.cattle.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"Grazing cattle can ingest larvae, deprives host animal   nutrients weakens immune system, affecting growth   animal. Two treatments B applied randomly 60 animals   (30 two groups) control disease. animal weighed 11 times two-week intervals (one week   final two measurements). difference treatments, difference   first become manifest?","code":""},{"path":"/reference/kenward.cattle.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"Kenward, Michael G. (1987).   Method Comparing Profiles Repeated Measurements.   Applied Statistics, 36, 296-308.  Table 1.     https://doi.org/10.2307/2347788","code":""},{"path":"/reference/kenward.cattle.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"W. Zhang, C. Leng C. Y. Tang (2015).   joint modelling approach longitudinal studies   J. R. Statist. Soc. B, 77 (2015), 219--238.   https://doi.org/10.1111/rssb.12065","code":""},{"path":"/reference/kenward.cattle.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"","code":"if (FALSE) {      library(agridat)   data(kenward.cattle)   dat <- kenward.cattle    # Profile plots   libs(lattice)   foo1 <- xyplot(weight~day|trt, data=dat, type='l', group=animal,                  xlab=\"Day\", ylab=\"Animal weight\", main=\"kenward.cattle\")   print(foo1)      # ----------    # lme4. Fixed treatment intercepts, treatment polynomial trend.   # Random deviation for each animal   libs(lme4)   m1a <-lmer(weight ~ trt*poly(day, 4) + (1|animal), data=dat,              REML = FALSE)   # Change separate polynomials into common polynomial   m1b <-lmer(weight ~ trt + poly(day, 4) + (1|animal), data=dat,              REML = FALSE)   # Drop treatment differences   m1c <-lmer(weight ~ poly(day, 4) + (1|animal), data=dat,              REML = FALSE)   anova(m1a, m1b, m1c) # Significant differences between trt polynomials    # Overlay polynomial predictions on plot   libs(latticeExtra)   dat$pred <- predict(m1a, re.form=NA)   foo1 + xyplot(pred ~ day|trt, data=dat,                 lwd=2, col=\"black\", type='l')      # A Kenward-Roger Approximation and Parametric Bootstrap   # libs(pbkrtest)   # KRmodcomp(m1b, m1c) # Non-signif   # Model comparison of nested models using parametric bootstrap methods   # PBmodcomp(m1b, m1c, nsim=500)   ## Parametric bootstrap test; time: 13.20 sec; samples: 500 extremes: 326;   ## large : weight ~ trt + poly(day, 4) + (1 | animal)   ## small : weight ~ poly(day, 4) + (1 | animal)   ##          stat df p.value   ## LRT    0.2047  1  0.6509   ## PBtest 0.2047     0.6527    # -----------    # ASREML approach to model. Not final by any means.   # Maybe a spline curve for each treatment, plus random deviations for each time   if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     m1 <- asreml(weight ~  1 + lin(day) +    # overall line                    trt + trt:lin(day),       # different line for each treatment                  data=dat,                  random = ~ spl(day) +       # overall spline                    trt:spl(day) +            # different spline for each treatment                    dev(day) + trt:dev(day) ) # non-spline deviation at each time*trt          p1 <- predict(m1, data=dat, classify=\"trt:day\")     p1 <- p1$pvals          foo2 <- xyplot(predicted.value ~ day|trt, p1, type='l', lwd=2, lty=1, col=\"black\")        libs(latticeExtra)     print(foo1 + foo2)      # Not much evidence for treatment differences        # wald(m1)     ##               Df Sum of Sq Wald statistic Pr(Chisq)         ## (Intercept)    1  37128459         139060    <2e-16 ***     ## trt            1       455              2    0.1917         ## lin(day)       1    570798           2138    <2e-16 ***     ## trt:lin(day)   1       283              1    0.3031         ## residual (MS)          267                                     # lucid::vc(m1)     ##               effect component std.error z.ratio constr     ##             spl(day)  25.29    24.09        1       pos     ##             dev(day)   1.902    4.923       0.39    pos     ## trt:spl(day)!trt.var   0.00003  0.000002   18      bnd      ## trt:dev(day)!trt.var   0.00003  0.000002   18      bnd      ##           R!variance 267       14.84       18       pos   }    }"},{"path":"/reference/kerr.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"Uniformity trials sugarcane, 4 fields","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"","code":"data(\"kerr.sugarcane.uniformity\")"},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"data frame 564 observations following 4 variables. row row col column yield yield, pounds per plot trial trial number","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"Experiment conducted Sugar Experiment Station, Brisbane, Queensland, Australia 1937. Four trials harvested, 12 plots 12 plots, plot 19 feet 19 feet (one field used 18-foot plots). Trial 1 plant cane. Trial 2 ratoon cane. Trial 3 plant cane, irrigated. Trial 4 ratoon cane, irrigated. Field length: 12 plots * 19 feet = 228 feet. Field width: 12 plots * 19 feet = 228 feet.","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"H. W. Kerr (1939). Notes plot technique.   Proc. Internat. Soc. Sugarcane Technol. 6, 764--778.","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"None","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(kerr.sugarcane.uniformity) dat <- kerr.sugarcane.uniformity  # match Kerr figure 4 libs(desplot) desplot(dat, yield ~ col*row|trial,         flip=TRUE, aspect=1, # true aspect         main=\"kerr.sugarcane.uniformity\")  # CV matches Kerr table 2, page 768 # aggregate(yield ~ trial, dat, FUN= function(x) round(100*sd(x)/mean(x),2)) ##   trial yield ## 1    T1  7.95 ## 2    T2  9.30 ## 3    T3 10.37 ## 4    T4 13.76  }"},{"path":"/reference/khan.brassica.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of brassica. — khan.brassica.uniformity","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"Uniformity trial brassica India.","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"","code":"data(\"khan.brassica.uniformity\")"},{"path":"/reference/khan.brassica.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"data frame 648 observations following 4 variables. field Field, F1 F2 row row ordinate col column ordinate yield yield, 1/8 ounce","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"Two different fields used, representing average type soil   Lyallpur.   area 90 ft 90 ft marked harvested individual   plots 5 feet per side. data copied pdf hand-corrected.","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"Khan, Abdur Rashid Jage Ram Dalal (1943).   Optimum Size Shape Plots Brassica Experiments Punjab.   Sankhyā: Indian Journal Statistics ,6, 3. Proceedings Indian Statistical Conference 1942 (1943), pp. 317-320.   https://www.jstor.org/stable/25047782","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"None.","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(khan.brassica.uniformity)   dat <- khan.brassica.uniformity    # Slightly different results than Khan Table 1.   ## dat    ##   mutate(yield=yield/8)    ##   group_by(field)    ##   summarize(mn=mean(yield), sd=sd(yield))    libs(desplot)   desplot(dat, yield ~ col*row | field,           flip=TRUE, aspect=1,           main=\"khan.brassica.uniformity\")  }"},{"path":"/reference/khin.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — khin.rice.uniformity","title":"Uniformity trial of rice — khin.rice.uniformity","text":"Uniformity trial rice Burma, 1948.","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — khin.rice.uniformity","text":"","code":"data(\"khin.rice.uniformity\")"},{"path":"/reference/khin.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — khin.rice.uniformity","text":"data frame 1080 observations following 3 variables. row row col column yield yield, oz/plot","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — khin.rice.uniformity","text":"uniformity trial rice. Conducted Mudon Agricultural   Station, Burma, 1947-48.  Basic plots 3 feet square. Field width: 30 plots * 3 feet. Field length: 36 plots * 3 feet. Data typed K.Wright.","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — khin.rice.uniformity","text":"Khin, San. 1950.   Investigation relative costs rice experiments based   efficiency designs.   Dissertation: Imperial College Tropical Agriculture (ICTA).   Appendix XV.   https://hdl.handle.net/2139/42422","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — khin.rice.uniformity","text":"None.","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — khin.rice.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(khin.rice.uniformity)   dat <- khin.rice.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE,           main=\"khin.rice.uniformity\",           aspect=(36*3)/(30*3)) # true aspect    }"},{"path":"/reference/kiesselbach.oats.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oats — kiesselbach.oats.uniformity","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"Uniformity trial oats Nebraska 1916.","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"","code":"data(\"kiesselbach.oats.uniformity\")"},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"data frame 207 observations following 3 variables. row row col column yield yield bu/ac","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"Experiment conducted 1916.  Crop Kerson oats. plot covered 1/30th acre.   Oats drilled plats 66 inches wide 16 rods long. drill   66 inches wide.  Plats separated space 16 inches   outside drill rows. source document includes three photographs field. 1 acre = 43560 sq feet 1/30 acre = 1452 sq feet = 16 rods * 16.5 ft/rod * 5.5 ft Field width: 3 plats * 16 rods/plat * 16.5 ft/rod = 792 feet Field length: 69 plats * 5.5 ft + 68 gaps * 1.33 feet = 469 feet","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"Kiesselbach, Theodore . (1917).   Studies Concerning Elimination Experimental Error Comparative Crop Tests.   University Nebraska Agricultural Experiment Station Research Bulletin . 13.   Pages 51-72.   https://archive.org/details/StudiesConcerningTheEliminationOfExperimentalErrorInComparativeCrop   https://digitalcommons.unl.edu/extensionhist/430/","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"None.","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(kiesselbach.oats.uniformity)   dat <- kiesselbach.oats.uniformity      range(dat$yield) # 56.7 92.8 match Kiesselbach p 64.    libs(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, flip=TRUE, aspect=792/469, # true aspect           main=\"kiesselbach.oats.uniformity\")    }"},{"path":"/reference/kirk.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Variety trial of potatoes, highly replicated — kirk.potato","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"Variety trial potatoes, highly replicated","code":""},{"path":"/reference/kirk.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"","code":"data(\"kirk.potato\")"},{"path":"/reference/kirk.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"data frame 380 observations following 5 variables. row row ordinate col column ordinate rep replicate (block) gen genotype (variety) yield yield, pounds per plot","code":""},{"path":"/reference/kirk.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"highly-replicated variety trial potatoes planted 1924 check plots every 5th row.   Entries randomized.   rod rows planted series across field, rows spaced   five links apart (nearly 3.5 feet) 3.5 foot passes   series. replicates sometimes dis-jointed, really blocks.","code":""},{"path":"/reference/kirk.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"Kirk, L. E. C. H. Goulden (1925)   statistical observations yield test potato varieties.   Scientific Agriculture, 6, 89-97.   https://doi.org/10.4141/sa-1925-0088 (paywall)   https://www.google.com/books/edition/Canadian_Journal_of_Agriculture_Science/TgIkAQAAMAAJ","code":""},{"path":"/reference/kirk.potato.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"None","code":""},{"path":"/reference/kirk.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"","code":"if (FALSE) {   library(agridat)   data(kirk.potato)   dat <- kirk.potato   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=1,           main=\"kirk.potato\")    # Match means in Table I   libs(dplyr)   dat  }"},{"path":"/reference/kling.augmented.html","id":null,"dir":"Reference","previous_headings":"","what":"Augmented design of meadowfoam — kling.augmented","title":"Augmented design of meadowfoam — kling.augmented","text":"Augmented design meadowfoam","code":""},{"path":"/reference/kling.augmented.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Augmented design of meadowfoam — kling.augmented","text":"","code":"data(\"kling.augmented\")"},{"path":"/reference/kling.augmented.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Augmented design of meadowfoam — kling.augmented","text":"data frame 68 observations following 7 variables. plot Plot number gen Genotype / Entry name Genotype name block Block, text tsw Thousand seed weight row Row ordinate col Column ordinate","code":""},{"path":"/reference/kling.augmented.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Augmented design of meadowfoam — kling.augmented","text":"experiment meadowfoam.   Blocks one direction, serpentine layout.   50 new genotypes 3 checks (C1=Ross, C2=OMF183,   C3=Starlight).   New genotypes 1 rep, checks 6 reps.   response variable thousand seed weight.","code":""},{"path":"/reference/kling.augmented.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Augmented design of meadowfoam — kling.augmented","text":"Jennifer Kling, \"Introduction Augmented Experimental Design\"   https://plant-breeding-genomics.extension.org/introduction--augmented-experimental-design/   Accessed May 2022.","code":""},{"path":"/reference/kling.augmented.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Augmented design of meadowfoam — kling.augmented","text":"None","code":""},{"path":"/reference/kling.augmented.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Augmented design of meadowfoam — kling.augmented","text":"","code":"if (FALSE) {  library(agridat) data(kling.augmented) dat <- kling.augmented libs(desplot,lattice,lme4) # Layout and yields desplot(dat, tsw ~ col*row, text=name, cex=1.5)  # Mixed model, fixed blocks, random genotypes m1 <- lmer(tsw ~ block + (1|name), data=dat) ran1 <- ranef(m1, condVar=TRUE) ran1 dotplot(ran1) # Caterpillar plot }"},{"path":"/reference/kreusler.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"Growth maize plants Germany 1875-1878.","code":""},{"path":"/reference/kreusler.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"","code":"data(\"kreusler.maize\")"},{"path":"/reference/kreusler.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"data frame 165 observations following 17 variables. gen genotype year year date calendar date raindays number days rain per week (zahl der regenstage) rain rain amount (mm) temp temperature mean (deg C) (temperatur mittel) parentseed weight parent seed (g) (alte korner) roots weight roots (g) (wurzel) leaves weight leaves (g) (blatter) stem weight stem (g) (stengel) tassel weight tassel (g) (blutenstande) grain weight grain (korner) plantweight weight entire plant (ganze pflanze) plantheight plant height (cm) (mittlere hohe der pflanzen) leafcount number leaves (anzahl der blatter) leafarea leaf area (cm^2) (flachenmaass der blatter)","code":""},{"path":"/reference/kreusler.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"Experiments performed Poppelsdorf, Germany (near Bonn) years 1875 1878.  Observations collected weekly throughout growing season. Five varieties grown 1875. Two 1876, one 1877 1878. plants selected eye representative, number plants chosen decreasing growing season.  example, dry-weight data based following number plants: 1875 number sampled began 20 dropped 10. 1876 number sampled began 45 dropped 24. 1877 number sampled began 90 dropped 36. 1878 number sampled began 120 dropped 40. observations included fresh weight dry weight entire plants, along leaf area, date inflorescence, fertilization, kernel development. data Hornberger 71 Kreusler/Hornberger, complete. temperature data originally given degrees Reaumur 1875 1876, degrees Celsius 1877 1878.  temperatures data degrees Celsius.  Note: deg C = 1.25 deg R.  Briggs, Kidd & West (1920) give temperature Celsius.","code":""},{"path":"/reference/kreusler.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"1875-1876 data : . Prehn & G. Becker. (1878)   Jahresbericht fur Agrikultur-chemie, Vol 20, p. 216-220.   https://books.google.com/books?id=ZfxNAAAAYAAJ&pg=216 1877 data : . Kreusler, . Prehn, Hornberger. (1880)   Jahresbericht fur Agrikultur-Chemie, Vol 21, p 248.   https://books.google.com/books?id=U3IYAQAAIAAJ&pg=248 1878 data : U. Kreusler, . Prehn, R. Hornberger. (1880).   Jahresbericht fur Agrikultur-Chemie, Vol 22, p. 211.   https://books.google.com/books?id=9HIYAQAAIAAJ&pg=211 Dry plant weight leaf area genotypes years   repeated : G. E. Briggs, Franklin Kidd, Cyril West. (1920).   Quantitative Analysis Plant Growth. Part .   Annals Applied Biology, 7, 103-123. G. E. Briggs, Franklin Kidd, Cyril West. (1920).   Quantitative Analysis Plant Growth. Part II.   Annals Applied Biology, 7, 202-223.","code":""},{"path":"/reference/kreusler.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"Roderick Hunt, G. Clifford Evans. 1980.   Classical Data Growth Maize: Curve Fitting Statistical Analysis.   New Phytol, 86, 155-180.","code":""},{"path":"/reference/kreusler.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"","code":"if (FALSE) {  data(kreusler.maize) dat <- kreusler.maize dat$date2 <- as.Date(dat$date,\"%d %b %Y\") dat$doy <- as.numeric(strftime(dat$date2, format=\"%j\"))  # Hunt & Evans Fig 2a libs(lattice) xyplot(log10(plantweight)~doy|factor(year), data=dat, group=gen,        type=c('p','smooth'), span=.4, as.table=TRUE,        xlab=\"Day of year\", main=\"kreusler.maize - growth of maize\",        auto.key=list(columns=5))  # Hunt & Evans Fig 2b xyplot(log10(plantweight)~doy|gen, data=dat, group=factor(year),        type=c('p','smooth'), span=.5, as.table=TRUE,        xlab=\"Day of year\",        auto.key=list(columns=4)) # Hunt & Evans Fig 3a xyplot(log10(leafarea)~doy|factor(year), data=dat, group=gen,        type=c('p','smooth'), span=.5, as.table=TRUE,        xlab=\"Day of year\",        auto.key=list(columns=5)) # Hunt & Evans Fig 3a xyplot(log10(leafarea)~doy|gen, data=dat, group=factor(year),        type=c('p','smooth'), span=.5, as.table=TRUE,        xlab=\"Day of year\",        auto.key=list(columns=4))  # All traits  xyplot(raindays~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(rain~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(temp~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(parentseed~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(roots~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(leaves~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(stem~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(grain~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(plantweight~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(plantheight~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(leafcount~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(leafarea~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(tassel~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) }"},{"path":"/reference/kristensen.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — kristensen.barley.uniformity","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"Uniformity trial barley conducted Denmark, 1905.","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"","code":"data(\"kristensen.barley.uniformity\")"},{"path":"/reference/kristensen.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"data frame 718 observations following 3 variables. row row col column yield yield, hectograms/plot","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"Experiment conducted 1905 Askov, Denmark. Harvested plot size   10 x 14 'alen', 6.24 x 8.79 meters. soil uniform,   attack mildew spread adjacent field. Yield measured   hectograms/plot straw grain together. (Page 468). Orientation plots dimensions clear text,   aspect used example aligns well Kristensen   figure 1. Field width: 22 plots * 8.79 m Field length: 11 plots * 6.24 m Notes Kristensen: Fig 5 3x3 moving average, Fig 6   deviation trend, Fig 7 field average added   deviation.  Fig 13 another uniformity trial barley 1924, Fig   14 uniformity trial oats 1924.","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"R. K. Kristensen (1925).    Anlaeg og Opgoerelse af Markforsoeg.   Tidsskrift landbrugets planteavl, Vol 31, 464-494.   Fig 1, pg. 467.   https://dca.au.dk/publikationer/historiske/planteavl/","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"J. Neyman, K. Iwaszkiewicz, St. Kolodziejczyk. (1935).   Statistical Problems Agricultural Experimentation.   Supplement Journal Royal Statistical Society,   Vol. 2, . 2 (1935), pp. 107-180.   https://doi.org/10.2307/2983637","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(kristensen.barley.uniformity) dat <- kristensen.barley.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=(11*6.24)/(22*8.79),         main=\"kristensen.barley.uniformity\")    }"},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"Uniformity trial sorghum India, 3 years plots 1930-1932.","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"","code":"data(\"kulkarni.sorghum.uniformity\")"},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"data frame 480 observations following 4 variables. row row col column yield grain yield, tolas per plot year year","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"experiment conducted Sholapur district India   three consecutive years 1930-1932. One acre land (290 ft x 150 ft) chosen midst bigger area   (plot 13 Mohol Plot) sowing sorghum. harvested plots 1/160 acre   (72 ft 6 x 3 ft 9 ) containing three rows plants 15 . apart.   160 plots arranged forty rows four columns, yields   measured tolas. plot division kept intact three years,   yields 160 plots available three consecutive harvests. original   data given Appendix . Field width: 4 plots * 72.5 feet = 290 feet Field length: 40 plots * 3.75 feet = 150 feet Conclusions: \"Thus, highly narrow strips plots (length much greater breadth) lead   greater precision plots area much wider narrow.\" Correlation plots year years low.","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"Kulkarni, R. K., Bose, S. S., Mahalanobis, P. C.  (1936).   influence shape size plots effective precision field experiments sorghum.    Indian J. Agric. Sci., 6, 460-474. Appendix 1, page 172.   https://archive.org/details/.ernet.dli.2015.271737","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"None.","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"","code":"if (FALSE) {  library(agridat)  data(kulkarni.sorghum.uniformity) dat <- kulkarni.sorghum.uniformity  # match means on page 462 # tapply(dat$yield, dat$year, mean) #     1930     1931     1932  # 116.2875  67.2250 126.3688   libs(reshape2) libs(lattice) dmat <- acast(dat, row+col ~ year, value.var=\"yield\") splom(dmat, main=\"kulkarni.sorghum.uniformity\") cor(dmat)  libs(desplot) desplot(dat, yield ~ col*row|year,         flip=TRUE, aspect=150/290,         main=\"kulkarni.sorghum.uniformity\")    }"},{"path":"/reference/lambert.soiltemp.html","id":null,"dir":"Reference","previous_headings":"","what":"Average monthly soil temperature near Zurich — lambert.soiltemp","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"Average monthly soil temperature near Zurich, seven depths,   averaged four years.","code":""},{"path":"/reference/lambert.soiltemp.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"data frame 84 observations following 3 variables. month month depth depth soil (feet) temp temperature (units \"du Crest\")","code":""},{"path":"/reference/lambert.soiltemp.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"one earliest time series scientific literature. data show monthly soil temperature near Zurich, averaged   four years (beginning 1762), 7 different depths. temperature measurements related 'du Crest' scale.   (measurements seem exactly according du Crest   scale.  can read German, use Google books link see   can figure .)  Even scale Lambert's graph   match data. Greater depths show less variation greater lag temperature   responsiveness air temperature. data also appears Pedometrics, issue 23, December 2007.  ,   formula converting temperature make sense   data Table 1 directly match corresponding figure.","code":""},{"path":"/reference/lambert.soiltemp.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"Johann Heinrich Lambert (1779), Pyrometrie.  Page 358.   https://books.google.com/books?id=G5I_AAAAcAAJ&pg=PA358 Graph: https://www.fisme.science.uu.nl/wiskrant/artikelen/hist_grafieken/begin/images/pyrometrie.gif","code":""},{"path":"/reference/lambert.soiltemp.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"","code":"if (FALSE) {  library(agridat) # Reproduce Lambert figure 39.  data(lambert.soiltemp) dat <- lambert.soiltemp  # Make 3 cycles of the data so that the loess line bends back up at # month 1 and month 12 dat <- rbind(dat, transform(dat, month=month-12),              transform(dat, month=month+12)) libs(lattice) xyplot(temp ~ month, dat, group=depth, type=c('p','smooth'),        main=\"lambert.soiltemp\",        xlim=c(-3,15), ylab=\"Soil temperature (du Crest) at depth (feet)\",        span=.2, auto.key=list(columns=4))  # To do: Find a good model for this data }"},{"path":"/reference/lander.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"Uniformity trials wheat chari, 4 years land, India.","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"","code":"data(\"lander.multi.uniformity\")"},{"path":"/reference/lander.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"data frame 780 observations following 5 variables. row row col column yield yield, maunds per plot year year crop crop","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"Note, \"chari\" paper Andropogon Sorghum, \"wheat\"   Triticum vulgare. Uniformity trials carried Rawalpindi, India. area consisted 5 fields (D4,D5,D6,D7,D8), 5 acres   size. 5 fields divided three sub-divisions ,   B, C, means two strong bunds 5 feet wide. 3   sub-divisions divided 5 blocks, consisting 13   experimental plots 14 non-experiment strips 5 feet wide   separating plots . dimensions plot   207 ft 5 19 ft 1 . land used 4 consecutive crops. first crop   wheat, followed chari (sorghum), followed wheat 2 times. Field width: 207.42 * 5 plots = 1037.1 feet Field length: (19.08+5)*39 rows = 939.12 feet Conclusions: evident, therefore, soil heterogenity   revealed one  crop true index subsequent   behavior area respect crops. Even crop   raised different seasons shown constancy regards   soil heterogeneity.","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"Lander, P. E. et al. (1938).   Soil Uniformity Trials Punjab .   Ind. J. Agr. Sci. 8:271-307.","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"None","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(lander.multi.uniformity) dat <- lander.multi.uniformity  # Yearly means, similar to Lander table 7 ## filter(dat)  ## 1 1929   18.1 ## 2 1930   58.3 ## 3 1931   22.8 ## 4 1932   14.1  # heatmaps for all years libs(desplot) dat$year <- factor(dat$year) desplot(dat, yield ~ col*row|year,         flip=TRUE, aspect=(1037.1/939.12),         main=\"lander.multi.uniformity\")  }"},{"path":"/reference/lasrosas.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Yield monitor data corn field Argentina variable nitrogen.","code":""},{"path":"/reference/lasrosas.corn.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"","code":"data(\"lasrosas.corn\")"},{"path":"/reference/lasrosas.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"data frame 3443 observations following 8 variables. year year, 1999 2001 lat latitude long longitude yield yield, quintals/ha nitro nitrogen fertilizer, kg/ha topo topographic factor bv brightness value (proxy low organic matter content) rep rep factor nf nitrogen factor, N0-N4","code":""},{"path":"/reference/lasrosas.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Corn yield nitrogen fertilizer treatment field characteristics   Las Rosas farm, Rio Cuarto, Cordoba, Argentina. Data 6 nitro treatments, 3 reps, strips. Data collected using yield monitor, harvests 1999 2001. points within long strip averaged   distance points _within_ strip distance   _between_ strips (9.8 meters). topographic factor factor levels W = West slope, HT =   Hilltop, E = East slope, LO = Low East. 'rep' factor data added hand appear   original data. Slightly different levels nitrogen used two years,   nitrogen factor 'nf' created common levels across   years. Published descriptions data describe experiment design   randomized nitrogen treatments.  nitrogen treatments   randomized within one rep, randomization used   two reps. Anselin et al. used corn grain price $6.85/quintal nitrogen   cost $0.4348/kg. corners field 1999 :   https://www.google.com/maps/place/-33.0501258,-63.8488636   https://www.google.com/maps/place/-33.05229635,-63.84181819 Anselin et al. found significant response nitrogen slope.   However, Bongiovanni Lowenberg-DeBoer (2002) found slope   position significant 2001. Used permission ASU GeoDa Center.","code":""},{"path":"/reference/lasrosas.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Las Rosas data files obtained   https://geodacenter.asu.edu/sdata   converted ESRI shape files flat data.frame.","code":""},{"path":"/reference/lasrosas.corn.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Bongiovanni Lowenberg-DeBoer (2000).   Nitrogen management corn spatial regression model.   Proceedings Fifth International Conference Precision   Agriculture. Anselin, L., R. Bongiovanni, J. Lowenberg-DeBoer (2004).   spatial econometric approach economics site-specific   nitrogen management corn production.   American Journal Agricultural Economics, 86, 675--687.   https://doi.org/10.1111/j.0002-9092.2004.00610.x Lambert, Lowenberg-Deboer, Bongiovanni (2004).   Comparison Four Spatial Regression Models Yield Monitor Data:   Case Study Argentina.   Precision Agriculture, 5, 579-600.   https://doi.org/10.1007/s11119-004-6344-3 Suman Rakshit, Adrian Baddeley, Katia Stefanova, Karyn Reeves, Kefei   Chen, Zhanglong Cao, Fiona Evans, Mark Gibberd (2020).   Novel approach analysis spatially-varying treatment effects   -farm experiments.   Field Crops Research, 255, 15 September 2020, 107783.   https://doi.org/10.1016/j.fcr.2020.107783","code":""},{"path":"/reference/lasrosas.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"","code":"if (FALSE) {  library(agridat) data(lasrosas.corn) dat <- lasrosas.corn  # yield map libs(lattice,latticeExtra)  # for panel.levelplot.points redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield ~ long*lat|factor(year), data=dat,            main=\"lasrosas.corn grain yield\", xlab=\"Longitude\", ylab=\"Latitude\",           scales=list(alternating=FALSE),           prepanel = prepanel.default.xyplot,           panel = panel.levelplot.points,           type = c(\"p\", \"g\"), aspect = \"iso\", col.regions=redblue)   d1 <- subset(dat, year==1999)  # Experiment design xyplot(lat~long, data=d1, col=as.numeric(as.factor(d1$nitro)), pch=d1$topo,        main=\"lasrosas.corn experiment layout 1999\")  # A quadratic response to nitrogen is suggested xyplot(yield~nitro|topo, data=d1, type=c('p','smooth'), layout=c(4,1),        main=\"lasrosas.corn yield by topographic zone 1999\")  # Full-field quadratic response to nitrogen.  Similar to Bongiovanni 2000, # table 1. m1 <- lm(yield ~ 1 + nitro + I(nitro^2), data=d1, subset=year==1999) coef(m1)  }"},{"path":"/reference/lavoranti.eucalyptus.html","id":null,"dir":"Reference","previous_headings":"","what":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"Height Eucalyptus trees southern Brazil","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"data frame 490 observations following 4 variables. gen genotype (progeny) factor origin origin progeny loc location height height, meters","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"genotypes originated three different locations Queensland,   Australia, tested southern Brazil.  experiment   conducted randomized complete block design 6 plants per plot   10 blocks.  Mean tree height reported. testing locations described following table: Arciniegas-Alarcon (2010) used 'Ravenshoe' subset data   illustrate imputation missing values.","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"O J Lavoranti (2003). Estabilidade e adaptabilidade fenotipica   atraves da reamostragem bootstrap modelo AMMI, PhD thesis,   University Sao Paulo, Brazil.","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"Arciniegas-Alarcon, S. Garcia-Pena, M. dos Santos Dias,   C.T. Krzanowski, W.J. (2010). alternative methodology   imputing missing data trials genotype--environment   interaction, Biometrical Letters, 47, 1-14.   https://doi.org/10.2478/bile-2014-0006","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"","code":"if (FALSE) {  # Arciniegas-Alarcon et al use SVD and regression to estimate missing values. # Partition the matrix X as a missing value xm, row vector xr1, column # vector xc1, and submatrix X11 # X = [ xm  xr1 ] #     [ xc1 X11 ] and let X11 = UDV'. # Estimate the missing value xm = xr1 V D^{-1} U' xc1  data(lavoranti.eucalyptus) dat <- lavoranti.eucalyptus  libs(lattice) levelplot(height~loc*gen, dat, main=\"lavoranti.eucalyptus - GxE heatmap\")  dat <- droplevels(subset(dat, origin==\"Ravenshoe\")) libs(reshape2) dat <- acast(dat, gen~loc, value.var='height')  dat[1,1] <- NA x11 <- dat[-1,][,-1] X11.svd <- svd(x11) xc1 <- dat[-1,][,1] xr1 <- dat[,-1][1,] xm <- xr1  xm # = 18.29, Original value was 17.4  }"},{"path":"/reference/laycock.tea.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of tea — laycock.tea.uniformity","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Uniformity trials tea","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"","code":"data(\"laycock.tea.uniformity\")"},{"path":"/reference/laycock.tea.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"data frame 54 observations following 4 variables. loc location, L1 L2 row row col column yield yield (pounds)","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Actual physical dimensions tea shrubs given, use   estimate four feet square shrub (similar   eden.tea.uniformity experiment). Location 1 (Laycock, page 108) Research Station,   Nyasaland. Plots 10 15 bushes, harvested 23 times 1942. Field length: 8 plots * 10 bushes * 4 feet = 320 feet. Field width: 4 plots * 15 bushes * 4 feet = 240 feet. Location 2 (Laycock page 110) Mianga Estate, Nyasaland. Plots   9 11 bushes, harvested 18 times 1951/52. Field length: 9 plots * 9 bushes * 4 feet = 324 feet. Field width: 6 plots * 11 bushes * 4 feet = 264 feet.","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Laycock, D. H. (1955).   effect plot shape reducing errors tea experiments.   Tropical Agriculture, 32, 107-114.","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Zimmerman, Dale L., David . Harville. (1991).   random field approach analysis field-plot experiments   spatial experiments.   Biometrics, 47, 223-239.","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"","code":"if (FALSE) {  library(agridat)  data(laycock.tea.uniformity) dat <- laycock.tea.uniformity  libs(desplot) desplot(dat, yield ~ col*row|loc,         flip=TRUE, aspect=322/252, # average of 2 locs         main=\"laycock.tea.uniformity\")  }"},{"path":"/reference/lee.potatoblight.html","id":null,"dir":"Reference","previous_headings":"","what":"Repeated measurements of resistance to potato blight — lee.potatoblight","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"Repeated measurements resistance potato blight.","code":""},{"path":"/reference/lee.potatoblight.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"","code":"data(\"lee.potatoblight\")"},{"path":"/reference/lee.potatoblight.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"data frame 14570 observations following 7 variables. year planting year gen genotype / cultivar factor col column row row rep replicate block (numeric) date date data collection y score 1-9 blight resistance","code":""},{"path":"/reference/lee.potatoblight.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"data werre collected biennial screening trials conducted New Zealand Institute Crop Food Research Pukekohe Field Station.  trials evaluate resistance potato cultivars late blight caused fungus Phytophthora infestans. trial, damage necrotic tissue rated 1-9 scale multiple time points growing season. Lee (2009) used Bayesian model extends ordinal regression McCullagh include spatial variation sigmoid logistic curves model time dependence repeated measurements plot. Data 1989 included due different trial setup used.  trials  laid latinized row-column designs 4 5 reps.  plot consisted four seed tubers planted two Ilam Hardy spread plants single row 2 meters long 76 centimeter spacing rows. 1997, 18 plots lost due flooding. 2001, end season plants nearly dead. Note, plant-breeding, common use \"breeder code\" genotype, several years testing changed registered commercial variety name. R package, Potato Pedigree Database, https://www.plantbreeding.wur.nl/potatopedigree/reverselookup.php, used change breeder codes (early testing) variety names used later testing.  example, among changes made following: Used permission Arier Chi-Lun Lee John Anderson. Data retrieved   https://researchspace.auckland.ac.nz/handle/2292/5240. Licensed via Open Database License 1.0. (allows sub-licensing).   See: https://opendatacommons.org/licenses/dbcl/1.0/","code":""},{"path":"/reference/lee.potatoblight.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"Lee, Arier Chi-Lun (2009).   Random effects models ordinal data.   Ph.D. thesis, University Auckland.   https://researchspace.auckland.ac.nz/handle/2292/4544.","code":""},{"path":"/reference/lee.potatoblight.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"","code":"if (FALSE) {  library(agridat) data(lee.potatoblight) dat <- lee.potatoblight  # Common cultivars across years. # Based on code from here: https://stackoverflow.com/questions/20709808 gg <- tapply(dat$gen, dat$year, function(x) as.character(unique(x))) tab <- outer(1:11, 1:11,              Vectorize(function(a, b) length(Reduce(intersect, gg[c(a, b)])))) head(tab) # Matches Lee page 27. ##      [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] ## [1,]   20   10    7    5    3    2    3    2    3     3     2 ## [2,]   10   30   17    5    4    3    4    4    5     4     2 ## [3,]    7   17   35    9    6    3    4    5    6     4     3 ## [4,]    5    5    9   35   16    8    9   14   15    13    11 ## [5,]    3    4    6   16   40   12   11   18   18    16    14   # Note the progression to lower scores as time passes in each year skp <- c(rep(0,10),          rep(0,7),1,1,1,          rep(0,8),1,1,          rep(0,6),1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,6),1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,5),1,1,1,1,1)  libs(desplot) desplot(dat, y ~ col*row|date,         ylab=\"Year of testing\", # unknown aspect         layout=c(10,11),skip=as.logical(skp),         main=\"lee.potatoblight - maps of blight resistance over time\")   # 1983 only.  I.Hardy succumbs to blight quickly libs(lattice) xyplot(y ~ date|gen, dat, subset=year==1983, group=rep,        xlab=\"Date\", ylab=\"Blight resistance score\",        main=\"lee.potatoblight 1983\", as.table=TRUE,        auto.key=list(columns=5),        scales=list(alternating=FALSE, x=list(rot=90, cex=.7))) }"},{"path":"/reference/lehmann.millet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of millet in India — lehmann.millet.uniformity","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Uniformity trial millet India, 3 years land.","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"","code":"data(\"lehmann.millet.uniformity\")"},{"path":"/reference/lehmann.millet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"data frame 396 observations following 5 variables. year year plot plot (row) range range (column) yield grain yield (pounds) total total crop yield (pounds)","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Experiment farm near Bangalore. plots 1/10 acre, 50 links   wide 200 links long. [6th report, p. 2]. middle part   field occupied buildings. 6th report:   Map (partially scanned pdf).   \"part dry lands nearest tank, quite   uniform remainder, already excluded experimental ground proper\". 7th report:   P. 12 (pdf page 233) grain/straw yield 1905. 9th report:   P. 1-10 comments.   P. 36-39 data: Table 1 grain yield, table 2 total yield   grain straw. Columns , left-right, -F. Rows , top-bottom,   1-22. season 1906 abnormally wet compared 1905 1907. [9th report] Field width: 6 plots * 200 links Field length: 22 plots * 50 links","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Lehmann, .   Ninth Annual Report Agricultural Chemist Year 1907-08.   Department Agriculture, Mysore State.   [2nd-9th] Annual Report Agricultural Chemist.    https://books.google.com/books?id=u_dHAAAAYAAJ","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Theodor Roemer (1920).   Der Feldversuch. Page 69, table 13.","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"","code":"if (FALSE) {      library(agridat)   data(lehmann.millet.uniformity)   dat <- lehmann.millet.uniformity    libs(desplot)   dat$year = factor(dat$year)   desplot(dat, yield ~ range*plot|year,           aspect=(22*50)/(6*200),           main=\"lehmann.millet.uniformity\",           flip=TRUE, tick=TRUE)   desplot(dat, total ~ range*plot|year,           aspect=(22*50)/(6*200),           main=\"lehmann.millet.uniformity\",           flip=TRUE, tick=TRUE)      # libs(dplyr)   # group_by(dat, year)  }"},{"path":"/reference/lehner.soybeanmold.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Yield, white mold, sclerotia soybeans Brazil","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"","code":"data(\"lehner.soybeanmold\")"},{"path":"/reference/lehner.soybeanmold.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"data frame 382 observations following 9 variables. study study number year year harvest loc location name elev elevation region region trt treatment number yield crop yield, kg/ha mold white mold incidence, percent sclerotia weight sclerotia g/ha","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Data mean 4 reps. Original source (Portuguese)   https://ainfo.cnptia.embrapa.br/digital/bitstream/item/101371/1/Ensaios-cooperativos-de-controle-quimico-de-mofo-branco-na-cultura-da-soja-safras-2009--2012.pdf Data included via GPL3 license.","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Lehner, M. S., Pethybridge, S. J., Meyer, M. C., & Del Ponte,   E. M. (2016).   Meta-analytic modelling incidence-yield   incidence-sclerotial production relationships soybean white mould   epidemics.   Plant Pathology. doi:10.1111/ppa.12590","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Full commented code analysis   https://emdelponte.github.io/paper-white-mold-meta-analysis/","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"","code":"if (FALSE) {  library(agridat) data(lehner.soybeanmold) dat <- lehner.soybeanmold  if(0){   op <- par(mfrow=c(2,2))   hist(dat$mold, main=\"White mold incidence\")   hist(dat$yield, main=\"Yield\")   hist(dat$sclerotia, main=\"Sclerotia weight\")   par(op) }  libs(lattice) xyplot(yield ~ mold|study, dat, type=c('p','r'),        main=\"lehner.soybeanmold\") # xyplot(sclerotia ~ mold|study, dat, type=c('p','r'))  # meta-analysis. Could use metafor package to construct the forest plot, # but latticeExtra is easy; ggplot is slow/clumsy libs(latticeExtra, metafor) # calculate correlation & confidence for each loc cors <- split(dat, dat$study) cors <- sapply(cors,                FUN=function(X){                  res <- cor.test(X$yield, X$mold)                  c(res$estimate, res$parameter[1],                    conf.low=res$conf.int[1], conf.high=res$conf.int[2])                }) cors <- as.data.frame(t(as.matrix(cors))) cors$study <- rownames(cors) # Fisher Z transform cors <- transform(cors, ri = cor) cors <- transform(cors, ni = df + 2) cors <- transform(cors,                   yi = 1/2 * log((1 + ri)/(1 - ri)),                   vi = 1/(ni - 3)) # Overall correlation across studies overall <- rma.uni(yi, vi, method=\"ML\", data=cors) # metafor package # back transform overall <- predict(overall, transf=transf.ztor)  # weight and size for forest plot wi    <- 1/sqrt(cors$vi) size  <- 0.5 + 3.0 * (wi - min(wi))/(max(wi) - min(wi))  # now the forest plot # must use latticeExtra::layer in case ggplot2 is also loaded segplot(factor(study) ~ conf.low+conf.high, data=cors,         draw.bands=FALSE, level=size, centers=ri, cex=size,         col.regions=colorRampPalette(c(\"gray85\", \"dodgerblue4\")),         main=\"White mold vs. soybean yield\",         xlab=paste(\"Study correlation, confidence, and study weight (blues)\\n\",                    \"Overall (black)\"),         ylab=\"Study ID\") +   latticeExtra::layer(panel.abline(v=overall$pred, lwd=2)) +   latticeExtra::layer(panel.abline(v=c(overall$cr.lb, overall$cr.ub), lty=2, col=\"gray\"))   # Meta-analyses are typically used when the original data is not available. # Since the original data is available, a mixed model is probably better. libs(lme4) m1 <- lmer(yield ~ mold # overall slope            + (1+mold |study), # random intercept & slope per study            data=dat) summary(m1)  }"},{"path":"/reference/lessman.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — lessman.sorghum.uniformity","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"Uniformity trial sorghum Ames, Iowa, 1959.","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"","code":"data(\"lessman.sorghum.uniformity\")"},{"path":"/reference/lessman.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"data frame 2640 observations following 3 variables. row row col column yield yield, ounces","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"uniformity trial conducted Agronomy Farm Ames, Iowa,   1959.  field planted grain sorghum rows spaces 40   inches apart, thinned stand three inches plants.    entire field 48 rows (40 inches apart), 300 feet long   harvested 5-foot lengths.  Threshed grain dried 8-10 percent   moisture weighing. Weights ounces.  Average yield   field 95.3 bu/ac. Field width: 48 rows * 40 inches / 12in/ft = 160 feet Field length: 60 plots * 5 feet = 300 feet Plot yields two outer rows side field   omitted analysis. CV values data quite match Lessman's value.    first page Table 17 manually checked correctness   problems optical character recognition (  obvious errors like 0/o).","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"Lessman, Koert James (1962).   Comparisons methods testing grain yield sorghum.   Iowa State University.   Retrospective Theses Dissertations. Paper 2063. Appendix Table 17.   https://lib.dr.iastate.edu/rtd/2063","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"None.","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(lessman.sorghum.uniformity)   dat <- lessman.sorghum.uniformity      libs(desplot)   desplot(dat, yield ~ col*row,           aspect=300/160, tick=TRUE, flip=TRUE, # true aspect           main=\"lessman.sorghum.uniformity\")    # Omit outer two columns (called 'rows' by Lessman)   dat <- subset(dat, col > 2 & col < 47)   nrow(dat)   var(dat$yield) # 9.09   sd(dat$yield)/mean(dat$yield) # CV 9.2    libs(reshape2)   libs(agricolae)   dmat <- acast(dat, row~col, value.var='yield')   index.smith(dmat,               main=\"lessman.sorghum.uniformity\",               col=\"red\") # Similar to Lessman Table 1   # Lessman said that varying the width of plots did not have an appreciable   # effect on CV, and optimal row length was 3.2 basic plots, about 15-20    }"},{"path":"/reference/li.millet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of millet — li.millet.uniformity","title":"Uniformity trial of millet — li.millet.uniformity","text":"Uniformity trial millet China 1934.","code":""},{"path":"/reference/li.millet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of millet — li.millet.uniformity","text":"data frame 600 observations following 3 variables. row row col column yield yield (grams)","code":""},{"path":"/reference/li.millet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of millet — li.millet.uniformity","text":"Crop date estimated 1934. Field 100 ft x 100 ft.  Plots 15 feet long 1 foot wide. Field width: 100 plots * 1 foot = 100 feet Field length: 6 plots * 15 feet = 100 feet Li found efficient use land obtained plats 15   feet long two rowss wide.  Also satisfactory one row 30   feet long.","code":""},{"path":"/reference/li.millet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of millet — li.millet.uniformity","text":"Li, HW Meng, CJ Liu, TN. 1936.   Field Results Millet Breeding Experiment.   Agronomy Journal, 28, 1-15.  Table 1.   https://doi.org/10.2134/agronj1936.00021962002800010001x","code":""},{"path":"/reference/li.millet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of millet — li.millet.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(li.millet.uniformity)   dat <- li.millet.uniformity    mean(dat$yield) # matches Li et al.      libs(desplot)   desplot(dat, yield~col*row,           aspect=100/100, # true aspect           main=\"li.millet.uniformity\")    }"},{"path":"/reference/libs.html","id":null,"dir":"Reference","previous_headings":"","what":"Load multiple packages and install if needed — libs","title":"Load multiple packages and install if needed — libs","text":"Install load packages \"fly\".","code":""},{"path":"/reference/libs.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Load multiple packages and install if needed — libs","text":"","code":"libs(...)"},{"path":"/reference/libs.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Load multiple packages and install if needed — libs","text":"... Comma-separated unquoted package names","code":""},{"path":"/reference/libs.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Load multiple packages and install if needed — libs","text":"None","code":""},{"path":"/reference/libs.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Load multiple packages and install if needed — libs","text":"'agridat' package uses dozens packages examples dataset. 'libs' function provides simple way load multiple packages , can install missing packages --fly. similar `pacman::p_load` function.","code":""},{"path":"/reference/libs.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Load multiple packages and install if needed — libs","text":"None","code":""},{"path":"/reference/libs.html","id":"author","dir":"Reference","previous_headings":"","what":"Author","title":"Load multiple packages and install if needed — libs","text":"Kevin Wright","code":""},{"path":"/reference/libs.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Load multiple packages and install if needed — libs","text":"","code":"if (FALSE) { libs(dplyr,reshape2) }"},{"path":"/reference/lillemo.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"Resistance wheat powdery mildew","code":""},{"path":"/reference/lillemo.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"","code":"data(\"lillemo.wheat\")"},{"path":"/reference/lillemo.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"data frame 408 observations following 4 variables. gen genotype, 24 levels env environrment, 13 levels score score scale scale used score","code":""},{"path":"/reference/lillemo.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"data means across reps original scores.  Lower scores   indicate better resistance mildew. location used one four different measurement scales   scoring resistance powdery mildew: 0-5 scale, 1-9 scale, 0-9 scale,   percent. Environment codes consist two letters location name two   digits year testing.  Location names: CA=Cruz Alta,   Brazil. Ba= Bawburgh, UK. Aa=, Norway. Ha=Hamar, Norway. Ch=Choryn,   Poland. Ce=Cerekwica, Poland. Ma=Martonvasar, Hungary. Kh=Kharkiv,   Ukraine. BT=Bila Tserkva, Ukraine. Gl=Glevakha, Ukraine. Bj=Beijing,   China. Note, Lillemo et al. remove genotype effects customary   calculating Huehn's non-parametric stability statistics. examples , results quite match   results Lillemo.  easily result original   data table rounded 1 decimal place.  example, environment   'Aa03' 3 reps mean genotype 1 probably 16.333,   16.3. Used permission Morten Lillemo. Electronic data supplied Miroslav Zoric.","code":""},{"path":"/reference/lillemo.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"Morten Lillemo, Ravi Sing, Maarten van Ginkel. (2011).   Identification Stable Resistance Powdery Mildew Wheat Based   Parametric Nonparametric Methods   Crop Sci. 50:478-485.   https://doi.org/10.2135/cropsci2009.03.0116","code":""},{"path":"/reference/lillemo.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"None.","code":""},{"path":"/reference/lillemo.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"","code":"if (FALSE) {  library(agridat) data(lillemo.wheat) dat <- lillemo.wheat  # Change factor levels to match Lillemo dat$env <- as.character(dat$env) dat$env <- factor(dat$env,                   levels=c(\"Bj03\",\"Bj05\",\"CA03\",\"Ba04\",\"Ma04\",                            \"Kh06\",\"Gl05\",\"BT06\",\"Ch04\",\"Ce04\",                            \"Ha03\",\"Ha04\",\"Ha05\",\"Ha07\",\"Aa03\",\"Aa04\",\"Aa05\")) # Interesting look at different measurement scales by environment libs(lattice) qqmath(~score|env, dat, group=scale,        as.table=TRUE, scales=list(y=list(relation=\"free\")),        auto.key=list(columns=4),        main=\"lillemo.wheat - QQ plots by environment\")     # Change data to matrix format   libs(reshape2)   datm <- acast(dat, gen~env, value.var='score')      # Environment means. Matches Lillemo Table 3   apply(datm, 2, mean)      # Two different transforms within envts to approximate 0-9 scale   datt <- datm   datt[,\"CA03\"] <- 1.8 * datt[,\"CA03\"]   ix <- c(\"Ba04\",\"Kh06\",\"Gl05\",\"BT06\",\"Ha03\",\"Ha04\",\"Ha05\",\"Ha07\",\"Aa03\",\"Aa04\",\"Aa05\")   datt[,ix] <- apply(datt[,ix],2,sqrt)    # Genotype means of transformed data. Matches Lillemo table 3.   round(rowMeans(datt),2)    # Biplot of transformed data like Lillemo Fig 2   libs(gge)   biplot(gge(datt, scale=FALSE), main=\"lillemo.wheat\")      # Median polish of transformed table   m1 <- medpolish(datt)   # Half-normal prob plot like Fig 1   # libs(faraway)   # halfnorm(abs(as.vector(m1$resid)))    # Nonparametric stability statistics. Lillemo Table 4.   huehn <- function(mat){     # Gen in rows, Env in cols       nenv <- ncol(mat)     # Corrected yield. Remove genotype effects     # Remove the following line to match Table 4 of Lillemo     mat <- sweep(mat, 1, rowMeans(mat)) + mean(mat)     # Ranks in each environment     rmat <- apply(mat, 2, rank)          # Mean genotype rank across envts     MeanRank <- apply(rmat, 1, mean)          # Huehn S1     gfun <- function(x){       oo <- outer(x,x,\"-\")       sum(abs(oo)) # sum of all absolute pairwise differences     }     S1 <- apply(rmat, 1, gfun)/(nenv*(nenv-1))          # Huehn S2     S2 <- apply((rmat-MeanRank)^2,1,sum)/(nenv-1)          out <- data.frame(MeanRank,S1,S2)     rownames(out) <- rownames(mat)     return(out)   }   round(huehn(datm),2) # Matches table 4      # I do not think phenability package gives correct values for S1   # libs(phenability)   # nahu(datm)    }"},{"path":"/reference/lin.superiority.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"Multi-environment trial 33 barley genotypes 12 locations","code":""},{"path":"/reference/lin.superiority.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"","code":"data(\"lin.superiority\")"},{"path":"/reference/lin.superiority.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"data frame 396 observations following 4 variables. gen genotype/cultivar region region loc location yield yield (kg/ha)","code":""},{"path":"/reference/lin.superiority.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"Yield six-row barley 1983 annual report Eastern   Cooperative Test Canada. named cultivars Bruce, Conquest, Laurier, Leger checks,   cultivars tests.","code":""},{"path":"/reference/lin.superiority.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"C. S. Lin, M. R. Binns (1985).   Procedural approach assessing cultivar-location data: Pairwise genotype-environment interactions test cultivars checks   Canadian Journal Plant Science, 1985, 65(4): 1065-1071. Table 1.   https://doi.org/10.4141/cjps85-136","code":""},{"path":"/reference/lin.superiority.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"C. S. Lin, M. R. Binns (1988).   Superiority Measure Cultivar Performance Cultivar x Location Data.   Canadian Journal Plant Science, 68, 193-198.   https://doi.org/10.4141/cjps88-018 Mohammed Ali Hussein, Asmund Bjornstad, . H. Aastveit (2000).   SASG x ESTAB: SAS Program Computing Genotype x Environment   Stability Statistics.   Agronomy Journal, 92; 454-459.   https://doi.org/10.2134/agronj2000.923454x","code":""},{"path":"/reference/lin.superiority.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"","code":"if (FALSE) {  library(agridat)  data(lin.superiority) dat <- lin.superiority  libs(latticeExtra) libs(reshape2) # calculate the superiority measure of Lin & Binns 1988  dat2 <- acast(dat, gen ~ loc, value.var=\"yield\") locmean <- apply(dat2, 2, mean) locmax <- apply(dat2, 2, max) P <- apply(dat2, 1, function(x) {   sum((x-locmax)^2)/(2*length(x)) })/1000 P <- sort(P) round(P) # match Lin & Binns 1988 table 2, column Pi  # atlantic & quebec regions overlap # libs(gge) # m1 <- gge(dat, yield ~ gen*loc, env.group=region, #           main=\"lin.superiority\") # biplot(m1)  # create a figure similar to Lin & Binns 1988  # add P, locmean, locmax back into the data dat$locmean <- locmean[match(dat$loc, names(locmean))] dat$locmax <- locmax[match(dat$loc, names(locmax))] dat$P <- P[match(dat$gen, names(P))] dat$gen <- reorder(dat$gen, dat$P) xyplot(locmax ~ locmean|gen, data=dat,        type=c('p','r'), as.table=TRUE, col=\"gray\",        main=\"lin.superiority - Superiority index\",        xlab=\"Location Mean\",        ylab=\"Yield of single cultivars (blue) & Maximum (gray)\") +   xyplot(yield ~ locmean|gen, data=dat,          type=c('p','r'), as.table=TRUE, pch=19)  }"},{"path":"/reference/lin.unbalanced.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"Multi-environment trial 33 barley genotypes 18 locations","code":""},{"path":"/reference/lin.unbalanced.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"","code":"data(\"lin.unbalanced\")"},{"path":"/reference/lin.unbalanced.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"data frame 405 observations following 4 variables. gen genotype/cultivar loc location yield yield (kg/ha) region region","code":""},{"path":"/reference/lin.unbalanced.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"Yield six-row barley 1986 Eastern Cooperative trial named cultivars Bruce, Laurier, Leger checks, cultivars tests. Cultivar names use following codes.   \"\" Atlantic-Quebec. \"O\" \"Ontario\".   \"S\" second-year. \"T\" third-year.","code":""},{"path":"/reference/lin.unbalanced.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"C. S. Lin, M. R. Binns (1988).   Method Assessing Regional Trial Data Test Cultivars   Unbalanced Respect Locations.   Canadian Journal Plant Science, 68(4): 1103-1110.   https://doi.org/10.4141/cjps88-130","code":""},{"path":"/reference/lin.unbalanced.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"None","code":""},{"path":"/reference/lin.unbalanced.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"","code":"if (FALSE) {  library(agridat) data(lin.unbalanced) dat <- lin.unbalanced  # location maximum, Lin & Binns table 1 # aggregate(yield ~ loc, data=dat, FUN=max)  # location mean/index, Lin & Binns, table 1 dat2 <- subset(dat, is.element(dat$gen,   c('Bruce','Laurier','Leger','S1','S2',     'S3','S4','S5','S6','S7','T1','T2'))) aggregate(yield ~ loc, data=dat2, FUN=mean)  libs(reshape2) dat3 <- acast(dat, gen ~ loc, value.var=\"yield\") libs(lattice) lattice::levelplot(t(scale(dat3)), main=\"lin.unbalanced\", xlab=\"loc\", ylab=\"genotype\")  # calculate the superiority measure of Lin & Binns 1988. # lower is better locmax <- apply(dat3, 2, max, na.rm=TRUE) P <- apply(dat3, 1, function(x) {   sum((x-locmax)^2, na.rm=TRUE)/(2*length(na.omit(x))) })/1000 P <- sort(P) round(P) # match Lin & Binns 1988 table 2, column P }"},{"path":"/reference/linder.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat in Switzerland — linder.wheat","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"Multi-environment trial wheat Switzerland","code":""},{"path":"/reference/linder.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"","code":"data(\"linder.wheat\")"},{"path":"/reference/linder.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"data frame 252 observations following 4 variables. env environment block block gen genotype yield yield, 10 kg/ha","code":""},{"path":"/reference/linder.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"experiment 9 varieties wheat 7 localities Switzerland   1960, RCB design.","code":""},{"path":"/reference/linder.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"Arthur Linder (1960).   Design Analysis Experiments, notes lectures held   fall semester 1963 Statistics Department, University North   Carolina, page 160.   https://www.stat.ncsu.edu/information/library/mimeo.archive/ISMS_1964_398-.pdf","code":""},{"path":"/reference/linder.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"None.","code":""},{"path":"/reference/linder.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"","code":"library(agridat) data(linder.wheat) dat <- linder.wheat  libs(gge) dat <- transform(dat, eb=paste0(env,block)) m1 <- gge(dat, yield~gen*eb, env.group=env) biplot(m1, main=\"linder.wheat\")"},{"path":"/reference/little.splitblock.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-block experiment of sugar beets — little.splitblock","title":"Split-block experiment of sugar beets — little.splitblock","text":"Split-block experiment sugar beets.","code":""},{"path":"/reference/little.splitblock.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Split-block experiment of sugar beets — little.splitblock","text":"","code":"data(\"little.splitblock\")"},{"path":"/reference/little.splitblock.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-block experiment of sugar beets — little.splitblock","text":"data frame 80 observations following 6 variables. row row col column yield sugar beet yield, tons/acre harvest harvest date, weeks planting nitro nitrogen, pounds/acre block block","code":""},{"path":"/reference/little.splitblock.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-block experiment of sugar beets — little.splitblock","text":"Four rates nitrogen, laid 4x4 Latin-square experiment. Within column block, sub-plots strips (across 4 rows)   5 different harvest dates. use sub-plots s strips necessitates care determining   error terms ANOVA table. Note, Little yield value 22.3 row 3, column -H3. data   uses 23.3 order match marginal totals given Little.","code":""},{"path":"/reference/little.splitblock.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-block experiment of sugar beets — little.splitblock","text":"Thomas M. Little, F. Jackson Hills. (1978)   Agricultural Experimentation","code":""},{"path":"/reference/little.splitblock.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-block experiment of sugar beets — little.splitblock","text":"None.","code":""},{"path":"/reference/little.splitblock.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-block experiment of sugar beets — little.splitblock","text":"","code":"if (FALSE) {  library(agridat) data(little.splitblock) dat <- little.splitblock  # Match marginal totals given by Little. ## sum(dat$yield) ## with(dat, tapply(yield,col,sum)) ## with(dat, tapply(yield,row,sum))  # Layout shown by Little figure 10.2 libs(desplot) desplot(dat, yield ~ col*row,         out1=block, out2=col, col=nitro, cex=1, num=harvest,         main=\"little.splitblock\")   # Convert continuous traits to factors dat <- transform(dat, R=factor(row), C=factor(block),                  H=factor(harvest), N=factor(nitro))  if(0){   libs(lattice)   xyplot(yield ~ nitro|H,dat)   xyplot(yield ~ harvest|N,dat) }  # Anova table matches Little, table 10.3 m1 <- aov(yield ~ R + C + N + H + N:H +             Error(R:C:N + C:H + C:N:H), data=dat) summary(m1)  }"},{"path":"/reference/loesell.bean.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of white pea beans — loesell.bean.uniformity","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"Uniformity trial white pea beans","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"","code":"data(\"loesell.bean.uniformity\")"},{"path":"/reference/loesell.bean.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"data frame 1890 observations following 3 variables. row row ordinate col column ordinate yield yield, grams per plot","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"Trial conducted Michigan Agricultural Experiment Station, 1.75   acres. Beans planted rows 28 inches apart 15 Jun   1932. Plants spaced 1 2 inches apart. planting, area 210   ft x 210 feet. area divided 21 columns, 10 foot   wide, containing90 rows. Field length: 90 rows * 28 inches = 210 feet. Field width: 21 series * 10 feet = 210 feet. Author's conclusion: Increasing size plot increasing   length efficient increasing width. Note, missing values dataset result PDF scan   omitting corners table.","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"Loesell, Clarence (1936).    Size plot & number replications necessary varietal trials   white pea beans.   PhD Thesis, Michigan State. Table 3, p. 9-10.   https://d.lib.msu.edu/etd/5271","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"None","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"","code":"if (FALSE) {   require(agridat)   data(loesell.bean.uniformity)   dat <- loesell.bean.uniformity   require(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=1, tick=TRUE,           main=\"loesell.bean.uniformity\") }"},{"path":"/reference/lonnquist.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize, half diallel — lonnquist.maize","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"Half diallel maize","code":""},{"path":"/reference/lonnquist.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"","code":"data(\"lonnquist.maize\")"},{"path":"/reference/lonnquist.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"data frame 78 observations following 3 variables. p1 parent 1 factor p2 parent 2 factor yield yield","code":""},{"path":"/reference/lonnquist.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"Twelve hybrids selfed/crossed half-diallel design.   data means adjusted block effects.   Original experiment 3 reps 2 locations 2 years.","code":""},{"path":"/reference/lonnquist.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"J. H. Lonnquist, C. O. Gardner. (1961)   Heterosis Intervarietal Crosses Maize Implication   Breeding Procedures.   Crop Science, 1, 179-183.  Table 1.","code":""},{"path":"/reference/lonnquist.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"Mohring, Melchinger, Piepho. (2011).   REML-Based Diallel Analysis.   Crop Science, 51, 470-478.   https://doi.org/10.2135/cropsci2010.05.0272 C. O. Gardner S. . Eberhart. 1966.   Analysis Interpretation Variety Cross Diallel Related   Populations. Biometrics, 22, 439-452.   https://doi.org/10.2307/2528181","code":""},{"path":"/reference/lonnquist.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"","code":"if (FALSE) {    library(agridat)   data(lonnquist.maize)   dat <- lonnquist.maize   dat <- transform(dat,                    p1=factor(p1,                              levels=c(\"C\",\"L\",\"M\",\"H\",\"G\",\"P\",\"B\",\"RM\",\"N\",\"K\",\"R2\",\"K2\")),                    p2=factor(p2,                              levels=c(\"C\",\"L\",\"M\",\"H\",\"G\",\"P\",\"B\",\"RM\",\"N\",\"K\",\"R2\",\"K2\")))      libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   levelplot(yield ~ p1*p2, dat, col.regions=redblue,             main=\"lonnquist.maize - yield of diallel cross\")     # Calculate the F1 means in Lonnquist, table 1   # libs(reshape2)   # mat <- acast(dat, p1~p2)   # mat[upper.tri(mat)] <- t(mat)[upper.tri(mat)] # make symmetric   # diag(mat) <- NA   # round(rowMeans(mat, na.rm=TRUE),1)   ##    C     L     M     H     G     P     B    RM     N     K    R2    K2   ## 94.8  89.2  95.0  96.4  95.3  95.2  97.3  93.7  95.0  94.0  98.9 102.4     # Griffings method   # https://www.statforbiology.com/2021/stat_met_diallel_griffing/   # libs(lmDiallel)   # dat2 <- lonnquist.maize   # dat2 <- subset(dat2,   #                is.element(p1, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")) &   #                is.element(p2, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")))   # dat2 <- droplevels(dat2)   # dmod1 <- lm(yield ~ GCA(p1, p2) + tSCA(p1, p2),   #             data = dat2)   # dmod2 <- lm.diallel(yield ~ p1 + p2,    #                     data = dat2, fct = \"GRIFFING2\")   # anova.diallel(dmod1, MSE=7.1, dfr=60)   ## Response: yield   ##              Df Sum Sq Mean Sq F value    Pr(>F)       ## GCA(p1, p2)   5 234.23  46.846  6.5980 5.923e-05 ***   ## tSCA(p1, p2) 15 238.94  15.929  2.2436   0.01411 *     ## Residuals    60          7.100                             # ----------    if(require(\"asreml\", quietly=TRUE)){     # Mohring 2011 used 6 varieties to calculate GCA & SCA     # Matches Table 3, column 2     d2 <- subset(dat, is.element(p1, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")) &                         is.element(p2, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")))     d2 <- droplevels(d2)     libs(asreml,lucid)     m2 <- asreml(yield~ 1, data=d2, random = ~ p1 + and(p2))     lucid::vc(m2)     ##     effect component std.error z.ratio      con     ##  p1!p1.var     3.865     3.774     1   Positive     ## R!variance    15.93      5.817     2.7 Positive        # Calculate GCA effects     m3 <- asreml(yield~ p1 + and(p2), data=d2)     coef(m3)$fixed-1.462     # Matches Gardner 1966, Table 5, Griffing method   }    }"},{"path":"/reference/lord.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — lord.rice.uniformity","title":"Uniformity trial of rice — lord.rice.uniformity","text":"Uniformity trial rice Ceylon, 1929.","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — lord.rice.uniformity","text":"","code":"data(\"lord.rice.uniformity\")"},{"path":"/reference/lord.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — lord.rice.uniformity","text":"data frame 560 observations following 5 variables. field field row row col column grain grain weight, pounds per plot straw straw weight, pounds per plot","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — lord.rice.uniformity","text":"1929, eight fields 1/5 acre size broadcast seeded rice   Anuradhapura Experiment Station northern dry zone   Ceylon. broadcast, fields marked 10 ft 10 ft   squares. harvest, weights grain straw recorded. Fields 10-14 one side drain, fields 26-28   side. field surrounded bund. Plots next bunds higher   yields. Field width: 5 plots * 10 feet = 50 feet Field length: 14 plots * 10 feet = 140 feet Conclusions: \"appear plots 1/87 acre effective.\"","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — lord.rice.uniformity","text":"Lord, L. (1931).   Uniformity Trial Irrigated Broadcast Rice.   Journal Agricultural Science, 21(1), 178-188.   https://doi.org/10.1017/S0021859600008029","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — lord.rice.uniformity","text":"None","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — lord.rice.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(lord.rice.uniformity) dat <- lord.rice.uniformity  # match table on page 180 ## libs(dplyr) ## dat  ##   field grain straw ##   <chr> <dbl> <dbl> ## 1 10      590   732 ## 2 11      502   600 ## 3 12      315   488 ## 4 13      291   538 ## 5 14      489   670 ## 6 26      441   560 ## 7 27      451   629 ## 8 28      530   718  # There are consistently high yields along all edges of the field # libs(lattice) # bwplot(grain ~ factor(col)|field,dat) # bwplot(grain ~ factor(col)|field,dat)  # Heatmaps libs(desplot) desplot(dat, grain ~ col*row|field,         flip=TRUE, aspect=140/50,         main=\"lord.rice.uniformity\")   # bivariate scatterplots   # xyplot(grain ~ straw|field, dat)  }"},{"path":"/reference/love.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — love.cotton.uniformity","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Uniformity trial cotton","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"","code":"data(\"love.cotton.uniformity\")"},{"path":"/reference/love.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"data frame 170 observations following 3 variables. row row col column yield yield, unknown units","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Within 100-foot row, first 20 feet harvested single plot,   rest row harvested 5-foot lengths. Field width: 17 plots. First plot 20 foot segment, remaining   5 foot segments. Field length: 10 plots. distance rows given. Crop location certain.  However, Love & Reisner (2012) mentions   cotton \"blank test\" 200 plots Nanking 1929-1930. Neither document mentions weight unit. Possibly information collected papers Harry   Love Cornell:   https://rmc.library.cornell.edu/EAD/htmldocs/RMA00890.html   Cotton - Plot Technic Study 1930-1932. Box 3, Folder 34   However, turned hand-written manuscript Shiao   .k.. Siao, contained trial data ","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Harry Love (1937).   Application Statistical Methods Agricultural Research.   Commercial Press, Shanghai. Page 411.   https://archive.org/details/.ernet.dli.2015.233346/page/n421","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Harry Houser Love & John Henry Reisner (2012).   Cornell-Nanking Story.   Internet-First University Press.   https://ecommons.cornell.edu/bitstream/1813/29080/2/Cornell-Nanking_15Jun12_PROOF.pdf","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(love.cotton.uniformity)   # omit first column which has 20-foot plots   dat <- subset(love.cotton.uniformity, col > 1)    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=20/80, # just a guess           main=\"love.cotton.uniformity\")    }"},{"path":"/reference/lu.stability.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"Multi-environment trial illustrate stability statistics","code":""},{"path":"/reference/lu.stability.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"","code":"data(\"lu.stability\")"},{"path":"/reference/lu.stability.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"data frame 120 observations following 4 variables. yield yield gen genotype factor, 5 levels env environment factor, 6 levels block block factor, 4 levels","code":""},{"path":"/reference/lu.stability.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"Data 5 maize genotypes 2 years x 3 sites = 6 environments.","code":""},{"path":"/reference/lu.stability.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"H.Y. Lu C. T. Tien. (1993)   Studies nonparametric method phenotypic stability: II. Selection   stability agroeconomic concept.   J. Agric. Assoc. China 164:1-17.","code":""},{"path":"/reference/lu.stability.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"Hsiu Ying Lu. 1995.   PC-SAS Program Estimating Huehn's Nonparametric Stability   Statistics.   Agron J. 87:888-891. Kae-Kang Hwu Li-yu D Liu. (2013)   Stability Analysis Using Multiple Environment Trials Data Linear   Regression. (Chinese)   Crop, Environment & Bioinformatics 10:131-142.","code":""},{"path":"/reference/lu.stability.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"","code":"if (FALSE) {      library(agridat)   data(lu.stability)   dat <- lu.stability    # GxE means. Match Lu 1995 table 1   libs(reshape2)   datm <- acast(dat, gen~env, fun=mean, value.var='yield')   round(datm, 2)   # Gen/Env means. Match Lu 1995 table 3   apply(datm, 1, mean)   apply(datm, 2, mean)         # Traditional ANOVA. Match Hwu table 2   # F value for gen,env   m1 = aov(yield~env+gen+Error(block:env+env:gen), data=dat)   summary(m1)      # F value for gen:env, block:env   m2 <- aov(yield ~ gen + env + gen:env + block:env, data=dat)    summary(m2)    # Finlay Wilkinson regression coefficients   # First, calculate env mean, merge in   libs(dplyr)   dat2 <- group_by(dat, env)   dat2 <- mutate(dat2, locmn=mean(yield))   m4 <- lm(yield ~ gen -1 + gen:locmn, data=dat2)   coef(m4) # Match Hwu table 4  # Table 6: Shukla's heterogeneity test   dat2$ge = paste0(dat2$gen, dat2$env) # Create a separate ge interaction term     m6 <- lm(yield ~ gen + env + ge + ge:locmn, data=dat2)   m6b <- lm( yield ~ gen + env + ge + locmn, data=dat2)   anova(m6, m6b) # Non-significant difference    # Table 7 - Shukla stability   # First, environment means   emn <- group_by(dat2, env)   emn <- summarize(emn, ymn=mean(yield))   # Regress GxE terms on envt means   getab = (model.tables(m2,\"effects\")$tables)$'gen:env'   getab   for (ll in 1:nrow(getab)){     m7l <- lm(getab[ll, ] ~ emn$ymn)     cat(\"\\n\\n*************** Gen \",ll,\" ***************\\n\")      cat(\"Regression coefficient: \",round(coefficients(m7l)[2],5),\"\\n\")      print(anova(m7l))    } # Match Hwu table 7.  } # dontrun"},{"path":"/reference/lucas.switchback.html","id":null,"dir":"Reference","previous_headings":"","what":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Switchback experiment dairy cattle, milk yield 3 treatments","code":""},{"path":"/reference/lucas.switchback.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"","code":"data(\"lucas.switchback\")"},{"path":"/reference/lucas.switchback.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"data frame 36 observations following 5 variables. cow cow factor, 12 levels trt treatment factor, 3 levels period period factor, 3 levels yield yield (FCM = fat corrected milk), pounds/day block block factor","code":""},{"path":"/reference/lucas.switchback.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Lucas says   \"data feeding trials employing present designs yet available, uniformity data used\". Six cows started together block 1, three cows block 2   three cows block 3.","code":""},{"path":"/reference/lucas.switchback.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Lucas, HL. 1956.   Switchback trials two treatments.   Journal Dairy Science, 39, 146-154.   https://doi.org/10.3168/jds.S0022-0302(56)94721-X","code":""},{"path":"/reference/lucas.switchback.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Sanders, WL Gaynor, PJ. 1987.   Analysis Switchback Data Using Statistical Analysis System.   Journal Dairy Science, 70, 2186-2191.   https://doi.org/10.3168/jds.S0022-0302(87)80273-4","code":""},{"path":"/reference/lucas.switchback.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"","code":"if (FALSE) {  library(agridat)  data(lucas.switchback) dat <- lucas.switchback  # Create a numeric period variable dat$per <- as.numeric(substring(dat$period,2))  libs(lattice) xyplot(yield ~ period|block, data=dat, group=cow, type=c('l','r'),        auto.key=list(columns=6),        main=\"lucas.switchback - (actually uniformity data)\")  # Need to use 'terms' to preserve the order of the model terms # Really, cow(block), per:cow(block), period(block) m1 <- aov(terms(yield ~ block + cow:block + per:cow:block +                 period:block + trt, keep.order=TRUE), data=dat) anova(m1) # Match Sanders & Gaynor table 3 ## Analysis of Variance Table ##               Df  Sum Sq Mean Sq F value    Pr(>F) ## block          2   30.93  15.464  55.345 5.132e-05 *** ## block:cow      9 1700.97 188.997 676.426 1.907e-09 *** ## block:cow:per 12  120.47  10.040  35.932 4.137e-05 *** ## block:period   3   14.85   4.950  17.717  0.001194 ** ## trt            2    1.58   0.789   2.825  0.126048 ## Residuals      7    1.96   0.279  coef(m1) # trtT2 and trtT3 match Sanders table 3 trt diffs  }"},{"path":"/reference/lyon.potato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of potatoes — lyon.potato.uniformity","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"Uniformity trial potatoes Nebraska Experiment Station, 1909.","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"data frame 204 observations following 3 variables. row row col column, section yield yield, pounds","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"1909, potatoes harvested uniform land Nebraska   Experiment Station. 34 rows, 34 inches apart.   Lyon, page 97 says \"harvested row six sections,   seventy-two feet seven inches long.\"   clear SECTION 72 feet long,   ROW 72 feet long.  Yield potato roughly 0.5 0.8   pounds per square foot, seems plausible entire row   72 feet long (see calculations ). Field width: 6 plots = 72 feet Field length: 34 rows * 34 / 12in/ft = 96 ft","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"Lyon, T.L. (1911).   experiments estimate errors field plat tests.   Proc. Amer. Soc. Agron, 3, 89-114. Table III.   https://doi.org/10.2134/agronj1911.00021962000300010016x","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"None.","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(lyon.potato.uniformity)   dat <- lyon.potato.uniformity    # Yield per square foot, assuming 72 foot rows   sum(dat$yield)/(72*96) # 0.67 # seems about right   # Yield per square foot, assuming 72 foot plots   sum(dat$yield)/(6*72*96) # 0.11      libs(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, flip=TRUE, aspect=96/72, # true aspect           main=\"lyon.potato.uniformity\")    }"},{"path":"/reference/lyons.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"Yield winter wheat 12 sites 4 years.","code":""},{"path":"/reference/lyons.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"data frame 48 observations following 3 variables. loc location, 12 levels year year, numeric yield yield (kg)","code":""},{"path":"/reference/lyons.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"Krzanowski uses briefly multi-dimensional scaling.","code":""},{"path":"/reference/lyons.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"R. Lyons (1980). review multidimensional scaling.   Unpublished M.Sc. dissertation, University Reading.","code":""},{"path":"/reference/lyons.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"Krzanowski, W.J. (1988)   Principles multivariate analysis. Oxford University Press.","code":""},{"path":"/reference/lyons.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"","code":"if (FALSE) {  library(agridat) data(lyons.wheat) dat <- lyons.wheat  libs(lattice) xyplot(yield~factor(year), dat, group=loc,   main=\"lyons.wheat\",   auto.key=list(columns=4), type=c('p','l')) }"},{"path":"/reference/magistad.pineapple.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of pineapple — magistad.pineapple.uniformity","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"Uniformity trial pineapple Hawaii 1932","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"","code":"data(\"magistad.pineapple.uniformity\")"},{"path":"/reference/magistad.pineapple.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"data frame 137 observations following 6 variables. field field number plat plat number row row col column number number fruits weight weight fruits, grams","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"Field 19. Kunia. Harvested 1932. \"field, harvested 1932, four rows per bed. 300-foot bed divided four equal parts form plats 1, 2, 3, 4.  third [sic, second] bed similarly divided form plats 5 8, inclusive.  manner plats 9 24 formed. way 24 plats 75 feet long 1 bed wide formed.\" Page 635: \"smallest plats 75 6.5 feet\". Field length: 4 plats * 75 feet = 300 feet Field width: 6 plats * 6.5 feet = 39 feet Field 82. Pearl City. \"Eight beds, separated two beds, selected harvested. Beds 8 feet center center. bed divided three plats 76 feet long.\" columns data bed 1, 4, 7, 10, 13, 16, 19, 22 Note: Layout plats rows/columns assumes pattern field 19. Field length: 3 plats * 76 feet = 228 feet Field width: 22 plats * 8 feet = 176 feet. Field 21. Kahuku. \"field 21, Kahuku, experimental plan Latin square type, five beds five plats . beds 7.5 feet center center. plat approximately 60 feet long third bed selected harvested.\" Note: Layout plats rows/columns assumes pattern field 19. Field lenght: 5 plats * 60 feet = 300 feet Field width: 13 plats * 7.5 feet = 97.5 feet Field 1. Kunia. \"experiment another Latin square test eight plats column eight plats row. harvested 1930.  plat consisted two beds 150 feet long. Beds 6 feet center center consisted three rows . entire experimental area occupied 2.85 acres.\" Field length: 8 plats * 150 feet = 1200 feet Field width: 8 plats * 2 beds * 6 feet = 96 feet Total area: 1200*96/43560=2.64 acres","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"O. C. Magistad & C. . Farden (1934).   Experimental Error Field Experiments Pineapples.   Journal American Society Agronomy, 26, 631--643.   https://doi.org/10.2134/agronj1934.00021962002600080001x","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"None","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(magistad.pineapple.uniformity)   dat <- magistad.pineapple.uniformity    # match table page 641   ## dat    ##   summarize(number=mean(number),   ##             weight=mean(weight))    ##   field   number   weight   ## 1     1 596.4062 2499.922   ## 2    19 171.1667 2100.250   ## 3    21 171.1600 2056.800   ## 4    82 220.7500 1264.500      libs(desplot)   desplot(dat, weight ~ col*row,           subset=field==19,           aspect=300/39,           main=\"magistad.pineapple.uniformity - field 19\")   desplot(dat, weight ~ col*row,           subset=field==82,           aspect=228/176,           main=\"magistad.pineapple.uniformity - field 82\")             desplot(dat, weight ~ col*row,           subset=field==21,           aspect=300/97.5,           main=\"magistad.pineapple.uniformity - field 21\")   desplot(dat, weight ~ col*row,           subset=field==1,           aspect=1200/96,           main=\"magistad.pineapple.uniformity - field 1\")              }"},{"path":"/reference/masood.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — masood.rice.uniformity","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Uniformity trial rice Lahore, Punjab, circa 2011.","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — masood.rice.uniformity","text":"","code":"data(\"masood.rice.uniformity\")"},{"path":"/reference/masood.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — masood.rice.uniformity","text":"data frame 288 observations following 3 variables. row row col column yield yield, kg/m^2","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Data collected Rice Research Institute paddy yield trial.   single variety rice harvested area 12m x 24 m.   Yield kilograms measured square meter.   Masood et al report low degree similarity neighboring plots. Note, Smith index calculations match results   Pakistan Journal Agricultural Research, match   results American-Eurasian Journal, seems   paper seems refer data.  results may simply   differ scaling factor. yield values Masood labeled \"gm^2\" (gram per sq meter),   extremely low. Probably \"kgm^2\". Field length: 24 plots x 1m = 24m. Field width: 12 plots x 1m = 12m. Used permission Asif Masood.","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Masood, M Asif Raza, Irum. 2012.   Estimation optimum field plot size shape paddy yield trial.   Pakistan J. Agric. Res., Vol. 25 . 4, 2012","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Masood, M Asif Raza, Irum. 2012.   Estimation optimum field plot size shape paddy yield trial.   American-Eurasian Journal Scientific Research, 7, 264-269.   Table 1.   https://doi.org/10.5829/idosi.aejsr.2012.7.6.1926","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — masood.rice.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(masood.rice.uniformity)   dat <- masood.rice.uniformity      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, tick=TRUE, aspect=24/12, # true aspect           main=\"masood.rice.uniformity - yield heatmap\")    libs(agricolae)   libs(reshape2)   dmat <- acast(dat, row~col, value.var='yield')   index.smith(dmat,               main=\"masood.rice.uniformity\",               col=\"red\") # CVs match Table 3    }"},{"path":"/reference/mcclelland.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn — mcclelland.corn.uniformity","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"Uniformity trial corn Arkansas Experiment Station, 1925.","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"","code":"data(\"mcclelland.corn.uniformity\")"},{"path":"/reference/mcclelland.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"data frame 438 observations following 3 variables. row row col column yield yield","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"uniformity trial corn 1925 Arkansas Experimental   Station.   Unit measure given. Field width = 66ft * 2 = 132 feet. Field length = 219 rows * 44 inches / 12 inches/ft = 803 ft. Note: source document, table 2, first 'west' column   second--last row (page 822), value 1.40 assumed   typographical error changed 14.0 data. source document give unit measure plot   yields. yield bu/ac, value 12 bu/ac   low. hand, value 12 pounds per plot * 180 plots per   acre / 56 pounds per bushel = 39 bu/ac reasonable yield   corn 1925, whereas 12 kg per plot unlikely high.   Also, 1925, pound likely kilogram.","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"McClelland, Chalmer Kirk (1926).   determinations plat variability.   Agronomy Journal, 18, 819-823.   https://doi.org/10.2134/agronj1926.00021962001800090009x","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"None","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(mcclelland.corn.uniformity)   dat <- mcclelland.corn.uniformity      # McClelland table 3, first row, gives 11.2   # Probable error = 0.67449 * sd(). Relative to mean.   # 0.67449 * sd(dat$yield)/mean(dat$yield) # 11.2      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE,           aspect=(219*44/12)/132, # true aspect, 219 rows * 44 inches x 132 feet           main=\"mcclelland.corn.uniformity\")    }"},{"path":"/reference/mcconway.turnip.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of turnips — mcconway.turnip","title":"RCB experiment of turnips — mcconway.turnip","text":"RCB experiment turnips, 2 treatments planting date density","code":""},{"path":"/reference/mcconway.turnip.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of turnips — mcconway.turnip","text":"data frame 64 observations following 6 variables. gen genotype date planting date, levels 21Aug1990 28Aug1990 density planting density, 1, 2, 4, 8 kg/ha block block, 4 levels yield yield","code":""},{"path":"/reference/mcconway.turnip.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of turnips — mcconway.turnip","text":"randomized block experiment 16 treatments   allocated random four blocks.  16 treatments   combinations two varieties, two planting dates,   four densities. Lee et al (2008) proposed analysis using mixed models changing   treatment variances. Piepho (2009) proposed ordinary ANOVA using transformed data. Used permission Kevin McConway.","code":""},{"path":"/reference/mcconway.turnip.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of turnips — mcconway.turnip","text":"K. J. McConway, M. C. Jones, P. C. Taylor.   Statistical Modelling Using Genstat.","code":""},{"path":"/reference/mcconway.turnip.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of turnips — mcconway.turnip","text":"Michael Berthold, D. J. Hand.   Intelligent data analysis: introduction, 1998.   Pages 75--82. Lee, C.J. O Donnell, M. O Neill, M. (2008).   Statistical analysis field trials changing treatment   variance.   Agronomy Journal, 100, 484--489. Piepho, H.P. (2009),   Data transformation statistical analysis field trials   changing treatment variance.   Agronomy Journal, 101, 865--869.   https://doi.org/10.2134/agronj2008.0226x","code":""},{"path":"/reference/mcconway.turnip.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of turnips — mcconway.turnip","text":"","code":"if (FALSE) {  library(agridat) data(mcconway.turnip) dat <- mcconway.turnip dat$densf <- factor(dat$density)  # Table 2 of Lee et al. m0 <- aov( yield ~ gen * densf * date + block, dat ) summary(m0) ##                Df Sum Sq Mean Sq F value   Pr(>F) ## gen             1   84.0   83.95   8.753  0.00491 ** ## densf           3  470.4  156.79  16.347 2.51e-07 *** ## date            1  233.7  233.71  24.367 1.14e-05 *** ## block           3  163.7   54.58   5.690  0.00216 ** ## gen:densf       3    8.6    2.88   0.301  0.82485 ## gen:date        1   36.5   36.45   3.800  0.05749 . ## densf:date      3  154.8   51.60   5.380  0.00299 ** ## gen:densf:date  3   18.0    6.00   0.626  0.60224 ## Residuals      45  431.6    9.59 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  # Boxplots suggest heteroskedasticity for date, density libs(\"HH\") interaction2wt(yield ~ gen + date + densf +block, dat,                x.between=0, y.between=0,                main=\"mcconway.turnip - yield\")   libs(nlme) # Random block model m1 <- lme(yield ~ gen * date * densf, random= ~1|block, data=dat) summary(m1) anova(m1)  # Multiplicative variance model over densities and dates m2 <- update(m1,              weights=varComb(varIdent(form=~1|densf),                varIdent(form=~1|date))) summary(m2) anova(m2)  # Unstructured variance model over densities and dates m3 <- update(m1, weights=varIdent(form=~1|densf*date)) summary(m3) anova(m3)  # Table 3 of Piepho, using transformation m4 <- aov( yield^.235 ~ gen * date * densf + block, dat ) summary(m4)  }"},{"path":"/reference/mckinstry.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"Uniformity trial cotton South Rhodesia","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"","code":"data(\"mckinstry.cotton.uniformity\")"},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"data frame 480 observations following 3 variables. row row ordinate col column ordinate yield yield per plot, ounces","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"uniformity trial cotton experiment Gatooma, South Rhodesia. Conducted Empire Cotton Growing Corporation. Planted Nov 1934. Harvested Jun 1935. Field length: 20 rows x 25 feet. Field width: 24 columns x 3.5 feet. Crop History: season good peak flowering - good growth, heavy flowering - 5 weeks drought critical period crop, aggravated exceptionally heavy aphis attack heavy boll-worm attack accounts. Lay-: harvest, block 24 rows x 500 ft, row marked 20 lengths 25 ft , giving 480 small plots. use made data advisable ignore row 1 row 20, bordering roads. data made available special help staff Rothamsted Research Library.","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"None","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"","code":"library(agridat) data(mckinstry.cotton.uniformity) dat <- mckinstry.cotton.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, tick=TRUE, aspect=(20*25)/(24*3.5),         main=\"mckinstry.cotton.uniformity\")"},{"path":"/reference/mcleod.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"Yield yield components barley different seeding rates.","code":""},{"path":"/reference/mcleod.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"data frame 40 observations following 10 variables. year year, numeric site site factor rate rate, numeric plants plants per sq meter tillers tillers per plant heads heads per plant surviving percent surviving tillers grains grains per head weight weight 1000 grains yield yield tons/hectare","code":""},{"path":"/reference/mcleod.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"Trials conducted 5 sites, 3 years South Canterbury.   (sites every year).   Values average 6 blocks.  1974   severe drought.  years favorable growing conditions.","code":""},{"path":"/reference/mcleod.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"C. C. McLeod (1982).   Effects rates seeding barley sown grain.   New Zealand Journal Experimental Agriculture, 10, 133-136.   https://doi.org/10.1080/03015521.1982.10427857.","code":""},{"path":"/reference/mcleod.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"Maindonald (1992).","code":""},{"path":"/reference/mcleod.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"","code":"if (FALSE) {  library(agridat)  data(mcleod.barley) dat <- mcleod.barley  # Table 3 of McLeod.  Across-environment means by planting rate d1 <- aggregate(cbind(plants, tillers, heads, surviving, grains,                       weight, yield) ~ rate, dat, FUN=mean) # Calculate income based on seed cost of $280/ton, grain $140/ton. d1 <- transform(d1, income=140*yield-280*rate/1000) signif(d1,3) ##  rate plants tillers heads surviving grains weight yield ##    50 112.12    5.22  4.36     83.95  21.25  46.11  3.97 ##    75 162.75    4.04  3.26     80.89  19.95  45.10  4.26 ##   100 202.62    3.69  2.73     74.29  19.16  44.66  4.38 ##   125 239.00    3.28  2.33     71.86  18.45  43.45  4.41 ##   150 293.62    2.90  2.00     69.54  17.94  42.77  4.47  # Even though tillers/plant, heads/plant, surviving tillers, # grains/head, weight/1000 grains are all decreasing as planting # rate increases, the total yield is still increasing. # But, income peaks around seed rate of 100.  libs(lattice) xyplot(yield +income +surviving +grains +weight +plants +tillers +heads ~ rate,        data=d1, outer=TRUE, type=c('p','l'),        scales=list(y=list(relation=\"free\")),        xlab=\"Nitrogen rate\", ylab=\"Trait value\",        main=\"mcleod.barley - nitrogen response curves\"  )  }"},{"path":"/reference/mead.cauliflower.html","id":null,"dir":"Reference","previous_headings":"","what":"Leaves for cauliflower plants at different times — mead.cauliflower","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Leaves cauliflower plants different times two years.","code":""},{"path":"/reference/mead.cauliflower.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"data frame 14 observations following 4 variables. year year factor degdays degree days 32F leaves number leaves","code":""},{"path":"/reference/mead.cauliflower.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Numbers leaves 10 cauliflower plants two years,   temperature degree-days 32F, divided 100. year 1956-57 1957-58. data range shown, number leaves increasing   linearly.  Extrapolating backwards shows linear model   inappropriate, glm used.","code":""},{"path":"/reference/mead.cauliflower.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall. Page 251.","code":""},{"path":"/reference/mead.cauliflower.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Mick O'Neill. Regression & Generalized Linear (Mixed) Models.   Statistical Advisory & Training Service Pty Ltd.","code":""},{"path":"/reference/mead.cauliflower.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"","code":"if (FALSE) {  library(agridat) data(mead.cauliflower) dat <- mead.cauliflower  dat <- transform(dat, year=factor(year))  m1 <- glm(leaves ~ degdays + year, data=dat, family=poisson) coef(m1) ## (Intercept)     degdays    year1957 ##  3.49492453  0.08512651  0.21688760  dat$pred <- predict(m1, type=\"response\") libs(lattice) libs(latticeExtra) xyplot(leaves~degdays, data=dat, groups=year, type=c('p'),        auto.key=list(columns=2),        main=\"mead.cauliflower - observed (symbol) & fitted (line)\",        xlab=\"degree days\", ylab=\"Number of leaves\", ) +   xyplot(pred~degdays, data=dat, groups=year, type=c('l'), col=\"black\")  }"},{"path":"/reference/mead.cowpea.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"Intercropping experiment maize/cowpea, multiple nitrogen treatments.","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"data frame 72 observations following 6 variables. block block, 3 levels nitro nitrogen, 4 levels cowpea cowpea variety, 2 levels maize maize variety, 3 levels cyield cowpea yield, kg/ha myield maize yield, kg/ha","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"intercropping experiment conducted Nigeria.  four nitrogen   treatments 0, 40, 80, 120 kg/ha.","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"Roger Mead. 1990. Review Methodology Analysis Intercropping   Experiments.   Training Working Document . 6.  CIMMYT.   https://repository.cimmyt.org/xmlui/handle/10883/868","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall.  Page 390.","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"","code":"if (FALSE) {  library(agridat) data(mead.cowpea.maize) dat <- mead.cowpea.maize  # Cowpea and maize yields are clearly in competition libs(\"latticeExtra\") useOuterStrips(xyplot(myield ~ cyield|maize*cowpea, dat, group=nitro,                       main=\"mead.cowpea.maize - intercropping\",                       xlab=\"cowpea yield\",                       ylab=\"maize yield\", auto.key=list(columns=4)))   # Mead Table 2 Cowpea yield anova...strongly affected by maize variety. anova(aov(cyield ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat)) # Cowpea mean yields for nitro*cowpea aggregate(cyield ~ nitro+cowpea, dat, FUN=mean) # Cowpea mean yields for each maize variety aggregate(cyield ~ maize, dat, FUN=mean)  # Bivariate analysis aov.c <- anova(aov(cyield/1000 ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat))  aov.m <- anova(aov(myield/1000 ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat))  aov.cm <- anova(aov(cyield/1000 + myield/1000 ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat))  biv <- cbind(aov.m[,1:2], aov.c[,2], aov.cm[,2]) names(biv) <- c('df','maize ss','cowpea ss','ss for sum') biv$'sum of prod' <- (biv[,4] - biv[,2] - biv[,3] ) /2 biv$cor <- biv[,5]/(sqrt(biv[,2] * biv[,3])) signif(biv,2) ##                    df maize ss cowpea ss ss for sum sum of prod    cor ## block               2    0.290    0.0730      0.250      -0.058 -0.400 ## maize               2   18.000    0.4100     13.000      -2.600 -0.980 ## cowpea              1    0.027    0.0060      0.058       0.013  1.000 ## nitro               3   29.000    0.1100     25.000      -1.800 -0.980 ## maize:cowpea        2    1.100    0.0099      0.920      -0.099 -0.950 ## maize:nitro         6    1.300    0.0680      0.920      -0.200 -0.680 ## cowpea:nitro        3    0.240    0.1700      0.150      -0.130 -0.640 ## maize:cowpea:nitro  6    1.300    0.1400      1.300      -0.033 -0.079 ## Residuals          46   16.000    0.6000     14.000      -1.400 -0.460  }"},{"path":"/reference/mead.germination.html","id":null,"dir":"Reference","previous_headings":"","what":"Seed germination with different temperatures/concentrations — mead.germination","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"Seed germination different temperatures/concentrations","code":""},{"path":"/reference/mead.germination.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"data frame 64 observations following 5 variables. temp temperature regimen rep replication factor (blocking) conc chemical concentration germ number seeds germinating seeds number seeds tested = 50","code":""},{"path":"/reference/mead.germination.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"rep factor blocking factor. Used permission Roger Mead, Robert Curnow, Anne Hasted.","code":""},{"path":"/reference/mead.germination.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall.  Page 350-351.","code":""},{"path":"/reference/mead.germination.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"Schabenberger, O. Pierce, F.J., 2002.   Contemporary statistical models plant soil sciences.   CRC.","code":""},{"path":"/reference/mead.germination.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"","code":"if (FALSE) {  library(agridat)  data(mead.germination) dat <- mead.germination dat <- transform(dat, concf=factor(conc)) libs(lattice) xyplot(germ~log(conc+.01)|temp, dat, layout=c(4,1),        main=\"mead.germination\", ylab=\"number of seeds germinating\")  m1 <- glm(cbind(germ, seeds-germ) ~ 1, dat, family=binomial) m2 <- glm(cbind(germ, seeds-germ) ~ temp, dat, family=binomial) m3 <- glm(cbind(germ, seeds-germ) ~ concf, dat, family=binomial) m4 <- glm(cbind(germ, seeds-germ) ~ temp + concf, dat, family=binomial) m5 <- glm(cbind(germ, seeds-germ) ~ temp * concf, dat, family=binomial) anova(m1,m2,m3,m4,m5) ##   Resid. Df Resid. Dev Df Deviance ## 1        63    1193.80 ## 2        60     430.11  3   763.69 ## 3        60     980.10  0  -549.98 ## 4        57     148.11  3   831.99 ## 5        48      55.64  9    92.46  # Show logit and fitted values.  T2 has highest germination subset(cbind(dat, predict(m5), fitted(m5)), rep==\"R1\")  }"},{"path":"/reference/mead.lamb.html","id":null,"dir":"Reference","previous_headings":"","what":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"Number lambs born 3 breeds 3 farms","code":""},{"path":"/reference/mead.lamb.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"","code":"data(\"mead.lamb\")"},{"path":"/reference/mead.lamb.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"data frame 36 observations following 4 variables. farm farm: F1, F2, F3 breed breed: B1, B2, B3 lambclass lambing class: L0, L1, L2, L3 y count ewes class","code":""},{"path":"/reference/mead.lamb.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"data 'y' counts ewes different lambing classes.   classes number live lambs per birth 0, 1, 2, 3+ lambs.","code":""},{"path":"/reference/mead.lamb.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall. Page 359.","code":""},{"path":"/reference/mead.lamb.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"None","code":""},{"path":"/reference/mead.lamb.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"","code":"if (FALSE) {  library(agridat) data(mead.lamb) dat <- mead.lamb  # farm 1 has more ewes in lambclass 3 d2 <- xtabs(y ~ farm+breed+lambclass, data=dat) mosaicplot(d2, color=c(\"lemonchiffon1\",\"moccasin\",\"lightsalmon1\",\"indianred\"),            xlab=\"farm/lambclass\", ylab=\"breed\", main=\"mead.lamb\")  names(dat) <- c('F','B','L','y') # for compactness # Match totals in Mead example 14.6 libs(dplyr) dat <- group_by(dat, F,B) summarize(dat, y=sum(y)) ##          F      B     y ##   <fctr> <fctr> <int> ## 1     F1      A   150 ## 2     F1      B    46 ## 3     F1      C    78 ## 4     F2      A    72 ## 5     F2      B    79 ## 6     F2      C    28 ## 7     F3      A   224 ## 8     F3      B   129 ## 9     F3      C    34   # Models m1 <- glm(y ~ F + B + F:B, data=dat,           family=poisson(link=log)) m2 <- update(m1, y ~ F + B + F:B + L) m3 <- update(m1, y ~ F + B + F:B + L + B:L) m4 <- update(m1, y ~ F + B + F:B + L + F:L) m5 <- update(m1, y ~ F + B + F:B + L + B:L + F:L)  AIC(m1, m2, m3, m4, m5) # Model 4 has best AIC ##    df      AIC ## m1  9 852.9800 ## m2 12 306.5457 ## m3 18 303.5781 ## m4 18 206.1520 ## m5 24 213.8873  # Change contrasts for Miroslav m4 <- update(m4,              contrasts=list(F=contr.sum,B=contr.sum,L=contr.sum)) summary(m4)  # Match deviance table from Mead libs(broom) all <- do.call(rbind, lapply(list(m1, m2, m3, m4, m5), broom::glance)) all$model <- unlist(lapply(list(m1, m2, m3, m4, m5),                                function(x) as.character(formula(x)[3]))) all[,c('model','deviance','df.residual')] ##                         model  deviance df.residual ## 1                 F + B + F:B 683.67257          27 ## 2             F + B + L + F:B 131.23828          24 ## 3       F + B + L + F:B + B:L 116.27069          18 ## 4       F + B + L + F:B + F:L  18.84460          18 ## 5 F + B + L + F:B + B:L + F:L  14.57987          12   if(0){   # Using MASS::loglm   libs(MASS)   # Note: without 'fitted=TRUE', devtools::run_examples has an error   m4b <- MASS::loglm(y ~ F + B + F:B + L + F:L, data = dat, fitted=TRUE)   # Table of farm * class interactions. Match Mead p. 360   round(coef(m4b)$F.L,2)   fitted(m4b)   resid(m4b)   # libs(vcd)   # mosaic(m4b, shade=TRUE,   # formula = ~ F + B + F:B + L + F:L,   # residual_type=\"rstandard\", keep_aspect=FALSE) }  }"},{"path":"/reference/mead.strawberry.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of strawberry — mead.strawberry","title":"RCB experiment of strawberry — mead.strawberry","text":"RCB experiment strawberry","code":""},{"path":"/reference/mead.strawberry.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of strawberry — mead.strawberry","text":"data frame 32 observations following 5 variables. row row col column block block, 4 levels gen genotype, 8 levels yield yield, pounds","code":""},{"path":"/reference/mead.strawberry.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of strawberry — mead.strawberry","text":"hedge along right side (column 8) caused shading lower   yields. R. Mead said (discussion Besag & Higdon paper),   \"blocks defined (given experimenter)   entire horizontal rows...design trial actually   (unrecognized also) checker-board eight half-blocks   two groups split-plot varieties\". two sub-groups genotypes G, V, R1, F Re, M, E, P.","code":""},{"path":"/reference/mead.strawberry.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of strawberry — mead.strawberry","text":"Unknown, prior 1968 according Besag. Probably via R. Mead.","code":""},{"path":"/reference/mead.strawberry.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of strawberry — mead.strawberry","text":"R. Mead, 1990, Design Experiments. Julian Besag D Higdon, 1999.   Bayesian Analysis Agricultural Field Experiments,   Journal Royal Statistical Society: Series B (Statistical     Methodology),61, 691--746. Table 4.","code":""},{"path":"/reference/mead.strawberry.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of strawberry — mead.strawberry","text":"","code":"if (FALSE) {  library(agridat) data(mead.strawberry) dat <- mead.strawberry dat$sub <- ifelse(is.element(dat$gen, c('G', 'V', 'R1', 'F')),               \"S1\",\"S2\")  libs(desplot) desplot(dat, yield~col*row,         text=gen, cex=1, out1=block, out2=sub, # unknown aspect         main=\"mead.strawberry\")  }"},{"path":"/reference/mead.turnip.html","id":null,"dir":"Reference","previous_headings":"","what":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"Density/spacing experiment turnips 3 blocks.","code":""},{"path":"/reference/mead.turnip.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"","code":"data(\"mead.turnip\")"},{"path":"/reference/mead.turnip.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"data frame 60 observations following 4 variables. yield log yield (pounds/plot) block block spacing row spacing, inches density density seeds, pounds/acre","code":""},{"path":"/reference/mead.turnip.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"experiment turnips, 3 blocks, 20 treatments factorial   arrangement 5 seeding rates (density) 4 widths (spacing).","code":""},{"path":"/reference/mead.turnip.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"Roger Mead. (1988).   Design Experiments: Statistical Principles Practical Applications.   Example 12.3. Page 323.","code":""},{"path":"/reference/mead.turnip.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"H. P. Piepho, R. N. Edmondson. (2018).   tutorial statistical analysis factorial experiments   qualitative quantitative treatment factor levels.   Jour Agronomy Crop Science, 8, 1-27.   https://doi.org/10.1111/jac.12267","code":""},{"path":"/reference/mead.turnip.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"","code":"if (FALSE) {  library(agridat) data(mead.turnip) dat <- mead.turnip  dat$ratef <- factor(dat$density) dat$widthf <- factor(dat$spacing)  m1 <- aov(yield ~ block + ratef + widthf + ratef:widthf, data=dat) anova(m1) # table 12.10 in Mead  # Similar to Piepho fig 10 libs(lattice) xyplot(yield ~ log(spacing)|ratef, data=dat,        auto.key=list(columns=5),        main=\"mead.turnip - log(yield) for each density\",        group=ratef)  }"},{"path":"/reference/mercer.mangold.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of mangolds — mercer.mangold.uniformity","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"Uniformity trial mangolds Rothamsted Experiment Station,   England, 1910.","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"","code":"data(\"mercer.mangold.uniformity\")"},{"path":"/reference/mercer.mangold.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"data frame 200 observations following 4 variables. row row col column roots root yields, pounds leaves leaf yields, pounds","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"Grown 1910. plot 3 drills, drill 2.4 feet wide.   Plots 1/200 acres, 7.2 feet 30.25 feet long   \"length plots runs horizontal lines figures [  Table ], also direction drills across field.\" Field width: 10 plots * 30.25ft = 302.5 feet Field length: 20 plots * 7.25 ft = 145 feet","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"Mercer, WB Hall, AD, 1911. experimental error field trials   Journal Agricultural Science, 4, 107-132. Table 1.   https://doi.org/10.1017/S002185960000160X","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.     https://doi.org/10.1098/rspa.2006.1667 Theodor Roemer (1920).   Der Feldversuch. Page 64, table 5.","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(mercer.mangold.uniformity)   dat <- mercer.mangold.uniformity      libs(desplot)   desplot(dat, leaves~col*row,           aspect=145/302, # true aspect           main=\"mercer.mangold.uniformity - leaves\")    libs(desplot)   desplot(dat, roots~col*row,           aspect=145/302, # true aspect           main=\"mercer.mangold.uniformity - roots\")    libs(lattice)   xyplot(roots~leaves, data=dat)    }"},{"path":"/reference/mercer.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — mercer.wheat.uniformity","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"Uniformity trial wheat Rothamsted Experiment Station, England, 1910.","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"data frame 500 observations following 4 variables. row row col column grain grain yield, pounds straw straw yield, pounds","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"wheat crop grown summer 1910 Rothamsted   Experiment Station (Harpenden, Hertfordshire, England).  Great Knott,   seemingly uniform area 1 acre harvested separate plots,   1/500th acre size.  grain straw plot weighed   separately. McCullagh gives information plot size. Field width: 25 plots * 8 ft = 200 ft Field length: 20 plots * 10.82 ft = 216 ft D. G. Rossiter (2014) uses data extensive data analysis   tutorial.","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"Mercer, WB Hall, AD, (1911).   experimental error field trials   Journal Agricultural Science, 4, 107-132. Table 5.   https://doi.org/10.1017/S002185960000160X","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667 Theodor Roemer (1920).   Der Feldversuch. Page 65, table 6. D. G. Rossiter (2014). Tutorial: Using R Environment Statistical Computing   example Mercer & Hall wheat yield dataset. G. . Baker (1941).   Fundamental Distribution Errors Agricultural Field Trials.   National Mathematics Magazine, 16, 7-19.   https://doi.org/10.2307/3028105 'spdep' package includes grain yields   () spatial positions plot centres example dataset   'wheat'. Note, checked '4.03' values data match original   document.","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(mercer.wheat.uniformity)   dat <- mercer.wheat.uniformity       libs(desplot)   desplot(dat, grain ~ col*row,           aspect=216/200, # true aspect           main=\"mercer.wheat.uniformity - grain yield\")       libs(lattice)   xyplot(straw ~ grain, data=dat, type=c('p','r'),          main=\"mercer.wheat.uniformity - regression\")       libs(hexbin)   hexbinplot(straw ~ grain, data=dat)     libs(sp, gstat)   plot.wid <- 2.5   plot.len <- 3.2   nr <- length(unique(dat$row))   nc <- length(unique(dat$col))      xy <- expand.grid(x = seq(plot.wid/2, by=plot.wid, length=nc),                     y = seq(plot.len/2, by=plot.len, length=nr))   dat.sp <- dat   coordinates(dat.sp) <- xy      # heatmap   spplot(dat.sp, zcol = \"grain\", cuts=8,          cex = 1.6,          col.regions =  bpy.colors(8),          main = \"Grain yield\", key.space = \"right\")    # variogram   # Need gstat::variogram to get the right method   vg <- gstat::variogram(grain ~ 1, dat.sp, cutoff = plot.wid * 10, width = plot.wid)   plot(vg, plot.numbers = TRUE,        main=\"mercer.wheat.uniformity - variogram\")  }"},{"path":"/reference/miguez.biomass.html","id":null,"dir":"Reference","previous_headings":"","what":"Biomass of 3 crops in Greece — miguez.biomass","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Biomass 3 crops Greece","code":""},{"path":"/reference/miguez.biomass.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"","code":"data(\"miguez.biomass\")"},{"path":"/reference/miguez.biomass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"data frame 212 observations following 5 variables. doy day year block block, 1-4 input management input, Lo/Hi crop crop type yield yield tons/ha","code":""},{"path":"/reference/miguez.biomass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Experiment conducted Greece 2009. Yield values   destructive Measurements -ground biomass fiber sorghum,   maize, sweet sorghum. Hi management refers weekly irrigation high nitrogen applications.   Lo management refers bi-weekly irrigation low nitrogen. experiment 4 blocks. Crops planted DOY 141 0 yield.","code":""},{"path":"/reference/miguez.biomass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Fernando E. Miguez. R package nlraa.   https://github.com/femiguez/nlraa","code":""},{"path":"/reference/miguez.biomass.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Sotirios V. Archontoulis Fernando E. Miguez (2013).   Nonlinear Regression Models Applications Agricultural Research.   Agron. Journal, 105:1-13.   https://doi.org/10.2134/agronj2012.0506 Hamze Dokoohaki.   https://www.rpubs.com/Para2x/100378   https://rstudio-pubs-static.s3.amazonaws.com/100440_26eb9108524c4cc99071b0db8e648e7d.html","code":""},{"path":"/reference/miguez.biomass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"","code":"if (FALSE) {    library(agridat)   data(miguez.biomass)   dat <- miguez.biomass   dat <- subset(dat, doy > 141)    libs(lattice)   xyplot(yield ~ doy | crop*input,  data = dat,          main=\"miguez.biomass\",          groups = crop,          type=c('p','smooth'),          auto.key=TRUE)     # ----------   # Archontoulis et al fit some nonlinear models.   # Here is a simple example which does NOT account for crop/input   # Slow, so dont run   if(0){     dat2 <- transform(dat, eu = paste(block, input, crop))     dat2 <- groupedData(yield ~ doy | eu, data = dat2)     fit.lis <- nlsList(yield ~ SSfpl(doy, A, B, xmid, scal),                        data = dat2,                        control=nls.control(maxiter=100))     print(plot(intervals(fit.lis)))          libs(nlme)     # use all data to get initial values     inits <- getInitial(yield ~ SSfpl(doy, A, B, xmid, scal), data = dat2)     inits     xvals <- 150:325     y1 <- with(as.list(inits), SSfpl(xvals, A, B, xmid, scal))     plot(yield ~ doy, dat2)     lines(xvals,y1)          # must have groupedData object to use augPred     dat2 <- groupedData(yield ~ doy|eu, data=dat2)     plot(dat2)          # without 'random', all effects are included in 'random'     m1 <- nlme(yield ~ SSfpl(doy, A, B, xmid,scale),                data= dat2,                fixed= A + B + xmid + scale ~ 1,                # random = B ~ 1|eu, # to make only B random                random = A + B + xmid + scale ~ 1|eu,                start=inits)     fixef(m1)     summary(m1)     plot(augPred(m1, level=0:1),          main=\"miguez.biomass - observed/predicted data\") # only works with groupedData object   }    }"},{"path":"/reference/minnesota.barley.weather.html","id":null,"dir":"Reference","previous_headings":"","what":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"monthly weather summaries 6 sites barley yield   trials conducted.","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"data frame 719 observations following 8 variables. site site, 6 levels year year, 1927-1936 mo month, 1-12, numeric cdd monthly cooling degree days, Fahrenheit hdd monthly heating degree days, Fahrenheit precip monthly precipitation, inches min monthly average daily minimum temp, Fahrenheit max monthly average daily maximum temp, Fahrenheit","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"weather data extracted National Climate Data   Center, following weather stations chosen, based   availability weather data given time frame (1927-1936)   proximity town (site) barley data.  'cdd' cooling degree days, number degree days   temperature _above_ 65 Fahrenheit. 'hdd' heating degree days, _below_ 65 Fahrenheit. data available Duluth Dec, 1931.","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"National Climate Data Center, https://www.ncdc.noaa.gov/.","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"Kevin Wright. 2013.  Revisiting Immer's Barley Data.   American Statistitician, 67, 129-133.   https://doi.org/10.1080/00031305.2013.801783","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"","code":"if (FALSE) {    library(agridat) data(minnesota.barley.yield) dat <- minnesota.barley.yield data( minnesota.barley.weather) datw <- minnesota.barley.weather    # Weather trends over time   libs(latticeExtra)   useOuterStrips(xyplot(cdd~mo|year*site, datw, groups=year,                         main=\"minnesota.barley\",                         xlab=\"month\", ylab=\"Cooling degree days\",                         subset=(mo > 3 & mo < 10),                         scales=list(alternating=FALSE),                         type='l', auto.key=list(columns=5)))   # Total cooling/heating/precip in Apr-Aug for each site/yr ww <- subset(datw, mo>=4 & mo<=8) ww <- aggregate(cbind(cdd,hdd,precip)~site+year, data=ww, sum)  # Average yield per each site/env yy <- aggregate(yield~site+year, dat, mean)  minn <- merge(ww, yy)   # Higher yields generally associated with cooler temps, more precip libs(reshape2) me <- melt(minn, id.var=c('site','year')) mey <- subset(me, variable==\"yield\") mey <- mey[,c('site','year','value')] names(mey) <- c('site','year','y') mec <- subset(me, variable!=\"yield\") names(mec) <- c('site','year','covar','x') mecy <- merge(mec, mey) mecy$yr <- factor(mecy$year) foo <- xyplot(y~x|covar*site, data=mecy, groups=yr, cex=1, ylim=c(5,65),               par.settings=list(superpose.symbol=list(pch=substring(levels(mecy$yr),4))),               xlab=\"\", ylab=\"yield\", main=\"minnesota.barley\",               panel=function(x,y,...) {                 panel.lmline(x,y,..., col=\"gray\")                 panel.superpose(x,y,...)               },               scales=list(x=list(relation=\"free\")))   libs(latticeExtra)   foo <- useOuterStrips(foo, strip.left = strip.custom(par.strip.text=list(cex=.7)))   combineLimits(foo, margin.x=2L) # Use a common x axis for all rows  }"},{"path":"/reference/minnesota.barley.yield.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"expanded version barley data often   used illustrate dot plots.","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"data frame 647 observations following 4 variables. yield yield bu/ac gen genotype (variety) factor year year site site factor, 6 levels","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"lattice package contains smaller version data   years 1931 1932. following comments reference mentioned source   documents. Notes Immer (1934). University Farm location city Saint Paul. source provides yield data three blocks   location 1931 1932.  following registration numbers   names given:  Notes Harlan (1935): 1931 yields match average values Immer (1934). Minnesota 474 475 cultivars 'Svanhals x Lion' crosses. yields reported Crookston 1928 crop failure. (Page 20) Also, report North Dakota says   \"zero yields Williston, ND 1931 caused drought\". (Page 31) Notes Wiebe (1940): 1932 data generally match average values Immer (1934)   following notes. data Glabron St Paul 1932 missing, given 36.8   Immer (1934).  value treated missing R dataset. data Svansota Morris 1932 missing, given 35.0   Immer (1934).  value treated missing R dataset. yield 'Wisconsin 38' St Paul 1932 shown 3.80,   38 Immer (1934).  latter value used R dataset. yields No475 1932 reported Wiebe (1940),   reported Immer (1934). yields reported Morris 1933 1934, crop   failure owing drought. Notes Hayes (1942). sources gives block-level yield data 5 cultivars 4   sites 1932 1935.  Cultivar 'Barbless' 'Wisconsin   No38'.","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"H V Harlan P R Cowan Lucille Reinbach. (1935).   Yields barley varieties United States Canada, 1927-1931.   United States Dept Agriculture.   https://naldc.nal.usda.gov/download/CAT86200440/PDF Gustav . Wiebe, Philip Russell Cowan, Lucille Reinbach-Welch. (1940).   Yields barley varieties United States Canada, 1932-36.   United States Dept Agriculture.   https://books.google.com/books?id=OUfxLocnpKkC&pg=PA19","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"Immer, R. F. H. K. Hayes LeRoy Powers. (1934).   Statistical Determination Barley Varietal Adaptation.   Journal American Society Agronomy, 26, 403-419.   https://doi.org/10.2134/agronj1934.00021962002600050008x Hayes, H.K. Immer, F.R. (1942).   Methods plant breeding. McGraw Hill. Kevin Wright. (2013).  Revisiting Immer's Barley Data.   American Statistitician, 67, 129-133.   https://doi.org/10.1080/00031305.2013.801783","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"","code":"if (FALSE) {  library(agridat)  data(minnesota.barley.yield) dat <- minnesota.barley.yield dat$yr <- factor(dat$year)  # Drop Dryland, Jeans, CompCross, MechMixture because they have less than 5 # year-loc values dat <- droplevels(subset(dat, !is.element(gen, c(\"CompCross\",\"Dryland\",\"Jeans\",\"MechMixture\"))))  # 1934 has huge swings from one loc to the next libs(lattice) dotplot(gen~yield|site, dat, groups=yr,         main=\"minnesota.barley.yield\",         auto.key=list(columns=5), scales=list(y=list(cex=.5))) }"},{"path":"/reference/montgomery.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"Uniformity trial wheat Nebraska Experiment Station, 1909 & 1911.","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"","code":"data(\"montgomery.wheat.uniformity\")"},{"path":"/reference/montgomery.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"data frame 448 observations following 3 variables. year year col column row row yield yield, grams","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"Experiments conducted Nebraska Experiment Station. field sown Turkey winter wheat fall 1908   harvested 1909.  drill, 5.5 feet wide, driven across   first series 14 blocks, boundaries blocks later   established.  series sown way, space allowed   blocks.  block 5.5 ft square. experiment done 3 times harvests 1909, 1910, 1911.   simple heatmap 3 years' yields shown Montgomery   (1912), figure 3, p. 178. 1909 data given Montgomery (1913), figure 10, page 37.   NOTE: North right side diagram (determined   comparing yield values fertility map Montgomery 1912, p. 178). 1910 data available. 1911 data given Montgomery (1912), figure 1, page   165. NOTE: North top diagram. Field width: 14 plots * 5.5 feet Field length: 16 blocks * 5.5 feet Surface & Pearl (1916) give simple method adjusting yield due   fertility effects using 1909 data.","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"E. G. Montgomery (1912).   Variation Yield Methods Arranging Plats Secure   Comparative Results.   Twenty-Fifth Annual Report Agricultural Experiment Station Nebraska, 164-180.   https://books.google.com/books?id=M-5BAQAAMAAJ&pg=RA4-PA164 E. G. Montgomery (1913).   Experiments Wheat Breeding: Experimental Error Nursery   Variation Nitrogen Yield.   U.S. Dept Agriculture, Bureau Plant Industry, Bulletin 269.   Figure 10, page 37.   https://doi.org/10.5962/bhl.title.43602","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"Surface & Pearl, (1916).   method correcting soil heterogeneity variety tests.   Journal Agricultural Research, 5, 22, 1039-1050.   Figure 2.   https://books.google.com/books?id=BVNyoZXFVSkC&pg=PA1039","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(montgomery.wheat.uniformity)   dat <- montgomery.wheat.uniformity   dat09 <- subset(dat, year==1909)   dat11 <- subset(dat, year==1911)    # Match the figures of Montgomery 1912 Fig 3, p. 178   libs(desplot)   desplot(dat09, yield ~ col*row,           aspect=1, # true aspect           main=\"montgomery.wheat.uniformity - 1909 yield\")   desplot(dat, yield ~ col*row, subset= year==1911,           aspect=1, # true aspect           main=\"montgomery.wheat.uniformity - 1911 yield\")    # Surface & Pearl adjust 1909 yield for fertility effects.   # They calculate smoothed yield as (row sum)*(column sum)/(total)   # and subtract this from the overall mean to get 'deviation'.   # We can do something similar with a linear model with rows and columns   # as factors, then predict yield to get the smooth trend.   # Corrected yield = observed - deviation = observed - (smooth-mean)      m1 <- lm(yield ~ factor(col) + factor(row), data=dat09)   dev1 <- predict(m1) - mean(dat09$yield)   # Corrected.  Similar (but not exact) to Surface, fig 2.   dat09$correct <- round(dat09$yield - dev1,0)    libs(desplot)   desplot(dat09, yield ~ col*row,           shorten=\"none\", text=yield,           main=\"montgomery.wheat.uniformity 1909 observed\")   desplot(dat09, correct ~ col*row, text=correct,           cex=0.8, shorten=\"none\",           main=\"montgomery.wheat.uniformity 1909 corrected\")   # Corrected yields are slightly shrunk toward overall mean   plot(correct~yield,dat09, xlim=c(350,1000), ylim=c(350,1000))   abline(0,1)    }"},{"path":"/reference/moore.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"Uniformity trials pole beans, bush beans, sweet corn, carrots,   spring fall cauliflower Washington, 1952-1955.","code":""},{"path":"/reference/moore.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"data frame following columns minimum.  datasets   additional trait column. row row col column yield yield (pounds)","code":""},{"path":"/reference/moore.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"trials grown sandy loam soil Puyallup valley   Washington.  experiments gradient soil fertility   evident. Moore & Darroch appear assigned 4 treatments   plots used residual variation calculate CV.    examples 'raw' CV calculated always higher   CV given Moore & Darroch. Blue Lake Pole Beans. Conducted 1952. Seven pickings made 5-day intervals.   Table 26. Field width: 12 rows x 5 feet = 60 feet. Field length: 12 ranges x 10 feet = 120 feet. Bush Beans. Conducted 1955. Two harvests. Table 27. Field width: 24 rows x 3 feet = 72 feet. Field length: 24 ranges x 5 feet = 120 feet. Sweet Corn. Conducted 1952. Table 28-29. Field width: 24 rows x 3 feet = 72 feet. Field length: 12 ranges x 10 feet = 120 feet. Carrot. Conducted 1952. Table 30. Field width: 24 rows * 1.5 feet = 36 feet. Field length: 12 ranges * 5 feet = 60 feet. Spring Cauliflower. Conducted spring 1951.  Five harvests. Table 31-32. Field width: 12 rows x 3 feet = 36 feet. Field length: 10 plants * 1.5 feet * 20 ranges = 300 feet. Fall Cauliflower. Conducted fall 1951. Five harvests. Table 33-34. Field width: 12 rows x 3 feet = 36 feet. Field length: 10 plants * 1.5 feet * 20 ranges = 300 feet.","code":""},{"path":"/reference/moore.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"Moore, John F Darroch, JG. (1956).   Field plot technique Blue Lake pole beans, bush beans, carrots,   sweet corn, spring fall cauliflower, page 25-30.   Washington Agricultural Experiment Stations, Institute Agricultural   Sciences, State College Washington.   https://babel.hathitrust.org/cgi/pt?id=uiug.30112019919072&view=1up&seq=33&skin=2021","code":""},{"path":"/reference/moore.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"None.","code":""},{"path":"/reference/moore.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"","code":"if (FALSE) {  library(agridat)      cv <- function(x) sd(x)/mean(x)    libs(desplot)      # Pole Bean   data(moore.polebean.uniformity)   cv(moore.polebean.uniformity$yield) # 8.00. Moore says 6.73.   desplot(moore.polebean.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=120/60, # true aspect           main=\"moore.polebean.uniformity - yield\")    # Bush bean   data(moore.bushbean.uniformity)   cv(moore.bushbean.uniformity$yield) # 12.1. Moore says 10.8   desplot(moore.bushbean.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=120/72, # true aspect           main=\"moore.bushbean.uniformity - yield\")    # Sweet corn   data(moore.sweetcorn.uniformity)   cv(moore.sweetcorn.uniformity$yield) # 17.5. Moore says 13.6   desplot(moore.sweetcorn.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=120/72, # true aspect           main=\"moore.sweetcorn.uniformity - yield\")   ## desplot(moore.sweetcorn.uniformity, ears~col*row,   ##         flip=TRUE, tick=TRUE, aspect=120/72, # true aspect   ##         main=\"moore.sweetcorn.uniformity - ears\")   ## libs(lattice)   ## xyplot(yield ~ ears, moore.sweetcorn.uniformity)      libs(desplot)   # Carrot   data(moore.carrot.uniformity)   cv(moore.carrot.uniformity$yield) # 33.4. Moore says 27.6   desplot(moore.carrot.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=60/36, # true aspect           main=\"moore.carrot.uniformity - yield\")    libs(desplot)   # Spring cauliflower   data(moore.springcauliflower.uniformity)   cv(moore.springcauliflower.uniformity$yield) # 21. Moore says 19.5   desplot(moore.springcauliflower.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=300/36, # true aspect           main=\"moore.springcauliflower.uniformity - yield\")   ## desplot(moore.springcauliflower.uniformity, heads~col*row,    ##         flip=TRUE, tick=TRUE, aspect=300/36, # true aspect   ##         main=\"moore.springcauliflower.uniformity - heads\")   ## libs(lattice)   ## xyplot(yield ~ heads, moore.springcauliflower.uniformity)    libs(desplot)   # Fall cauliflower   data(moore.fallcauliflower.uniformity)   cv(moore.fallcauliflower.uniformity$yield) # 17.7. Moore says 17.0   desplot(moore.fallcauliflower.uniformity, yield~col*row,            flip=TRUE, tick=TRUE, aspect=300/36, # true aspect           main=\"moore.fallcauliflower.uniformity - yield\")   ## desplot(moore.fallcauliflower.uniformity, heads~col*row,    ##         flip=TRUE, tick=TRUE, aspect=300/36, # true aspect   ##         main=\"moore.fallcauliflower.uniformity - heads\")   ## libs(lattice)   ## xyplot(yield ~ heads, moore.fallcauliflower.uniformity)    }"},{"path":"/reference/nagai.strawberry.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of strawberry — nagai.strawberry.uniformity","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"Uniformity trial strawberry Brazil.","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"","code":"data(\"nagai.strawberry.uniformity\")"},{"path":"/reference/nagai.strawberry.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"data frame 432 observations following 3 variables. row row col column yield yield, grams/plot","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"uniformity trial strawberry, Jundiai, Brazil, April 1976. spacing plants rows 0.3 m. Test area 233.34 m^2.   18 rows 144 plants. plat consisted 6 consecutive plants.   432 plats, 0.54 m^2. Field length: 18 rows * 0.3 m = 5.4 m. Field width: 24 columns * 6 plants * 0.3 m = 43.2 m.","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"Violeta Nagai (1978).   Tamanho da parcela e numero de repeticoes em experimentos com morangueiro (Plot size number repetitions experiments strawberry).   Bragantia, 37, 71-81. Table 2, page 75.   https://dx.doi.org/10.1590/S0006-87051978000100009","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"None","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(nagai.strawberry.uniformity)   dat <- nagai.strawberry.uniformity      # CV matches Nagai   # with(dat, sd(yield)/mean(yield))   # 23.42      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(5.4)/(43.2), # true aspect           main=\"nagai.strawberry.uniformity\") }"},{"path":"/reference/nair.turmeric.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of turmeric. — nair.turmeric.uniformity","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"Uniformity trial turmeric India, 1984.","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"","code":"data(\"nair.turmeric.uniformity\")"},{"path":"/reference/nair.turmeric.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"data frame 864 observations following 3 variables. row row ordinate col column ordinate yield yield, grams per plot","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"experiment conducted College Horticulture, Vellanikkara,   India, 1984. crop grown raised beds. gross experimental area 74.2 m long x 15.2 m wide. Small   elevated beds 0.6 m x 1.5 m raised providing channels 0.4 m   around bed. One row beds around experiment   discarded eliminate border effects. discarding borders,   432 beds experiment. time harvest,   bed divided equal plots size .6 m x .75 m, yield   plot recorded. Field map page 64 Nair.   Nair focused mostly statistical   methods discuss actual experimental results   much detail. excess number plots 0 yield. Field length: 14 plots * .6 m + 13 alleys * .4 m = 13.6 m Field width: 72 plots * .75 m + 35 alleys * .4 m = 68 m Data found appendix.","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"Nair, B. Gopakumaran  (1984).   Optimum plot size field experiments turmeric.   Thesis, Kerala Agriculture University.   http://hdl.handle.net/123456789/7829","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"None.","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"","code":"if (FALSE) {      library(agridat)   data(nair.turmeric.uniformity)   dat <- nair.turmeric.uniformity    libs(lattice)   qqmath( ~ yield, dat)   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=13.6/68,           main=\"nair.turmeric.uniformity\")  }"},{"path":"/reference/narain.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — narain.sorghum.uniformity","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"Uniformity trial sorghum Pakistan, 1936.","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"","code":"data(\"narain.sorghum.uniformity\")"},{"path":"/reference/narain.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"data frame 160 observations following 3 variables. row row col column yield yield, maunds per 1/40 acre","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"uniformity trial chari (sorghum) Rawalpindi Agricultural   Station (Pakistan) kharif (monsoon season) 1936. plot   36 feet 30.25 feet.  source document describe   orientation plots, fertility map shown Narain figure   1 shows plots taller wide. Field width: 10 plots * 30.25 feet Field length: 16 plots * 36 feet","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"R. Narain . Singh, (1940).   Note Shape Blocks Field Experiments.   Ind. J. Agr. Sci., 10, 844-853. Page 845.   https://archive.org/stream/.ernet.dli.2015.271745","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"None","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(narain.sorghum.uniformity)   dat <- narain.sorghum.uniformity      # Narain figure 1   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(16*36)/(10*30.25),           main=\"narain.sorghum.uniformity\")    }"},{"path":"/reference/nass.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"U.S. historical crop yields by state — nass.corn","title":"U.S. historical crop yields by state — nass.corn","text":"Yields acres harvested state major agricultural   crops United States, approximately 1900 2011.   Crops include: barley, corn, cotton, hay, rice, sorghum, soybeans, wheat.","code":""},{"path":"/reference/nass.corn.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"U.S. historical crop yields by state — nass.corn","text":"","code":"nass.barley   nass.corn   nass.cotton   nass.hay   nass.sorghum   nass.wheat   nass.rice   nass.soybean"},{"path":"/reference/nass.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"U.S. historical crop yields by state — nass.corn","text":"year year state state factor acres acres harvested yield average yield","code":""},{"path":"/reference/nass.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"U.S. historical crop yields by state — nass.corn","text":"cautious yield values states small acres harvested. Yields bushels/acre, except: cotton pounds/acre, hay tons/acre,   rice pounds/acre. crop separate dataset: nass.barley, nass.corn, nass.cotton,   nass.hay, nass.sorghum, nass.wheat, nass.rice, nass.soybean.","code":""},{"path":"/reference/nass.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"U.S. historical crop yields by state — nass.corn","text":"United States Department Agriculture,   National Agricultural Statistics Service.   https://quickstats.nass.usda.gov/","code":""},{"path":"/reference/nass.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"U.S. historical crop yields by state — nass.corn","text":"","code":"if (FALSE) {  library(agridat) data(nass.corn) dat <- nass.corn  # Use only states that grew at least 100K acres of corn in 2011 keep <- droplevels(subset(dat, year == 2011 & acres > 100000))$state dat <- droplevels(subset(dat, is.element(state, keep)))  # Acres of corn grown each year libs(lattice) xyplot(acres ~ year|state, dat, type='l', as.table=TRUE,        main=\"nass.corn: state trends in corn acreage\")  ## Plain levelplot, using only states ## libs(reshape2) ## datm <- acast(dat, year~state, value.var='yield') ## redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) ## levelplot(datm, aspect=.7, col.regions=redblue, ##           main=\"nass.corn\", ##           scales=list(x=list(rot=90, cex=.7)))  # Model the rate of genetic gain in Illinois as a piecewise regression # Breakpoints define periods of open-pollinated varieties, double-cross, # single-cross, and transgenic hybrids.  dil <- subset(nass.corn, state==\"Illinois\" & year >= 1900) m1 <- lm(yield ~ pmin(year,1932) + pmax(1932, pmin(year, 1959)) +          pmax(1959, pmin(year, 1995)) + pmax(1995, year), dil) signif(coef(m1)[-1],3) # Rate of gain for each segment plot(yield ~ year, dil, main=\"nass.corn: piecewise linear model of Illinois corn yields\") lines(dil$year, fitted(m1)) abline(v=c(1932,1959,1995), col=\"wheat\")  }"},{"path":"/reference/nebraska.farmincome.html","id":null,"dir":"Reference","previous_headings":"","what":"Nebraska farm income in 2007 by county — nebraska.farmincome","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"Nebraska farm income 2007 county","code":""},{"path":"/reference/nebraska.farmincome.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"data frame 93 observations following 4 variables. county county crop crop income, thousand dollars animal livestock poultry income, thousand dollars area area county, square miles","code":""},{"path":"/reference/nebraska.farmincome.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"variables county : Value farm products sold - crops (NAICS) 2007 (adjusted) Value farm products sold - livestock, 2007 (adjusted). Area square miles. Note: Cuming county important beef-producing county.   counties reported protect privacy.   Western Nebraska dryer lower income.   South-central Nebraska irrigated higher crop income per   square mile.","code":""},{"path":"/reference/nebraska.farmincome.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"U.S. Department Agriculture-National Agriculture Statistics   Service. https://censtats.census.gov/usa/usa.shtml","code":""},{"path":"/reference/nebraska.farmincome.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"","code":"if (FALSE) {  library(agridat)  data(nebraska.farmincome) dat <- nebraska.farmincome  libs(maps, mapproj, latticeExtra) # latticeExtra for mapplot  dat$stco <- paste0('nebraska,', dat$county) # Scale to million dollars per county dat <- transform(dat, crop=crop/1000, animal=animal/1000)  # Raw, county-wide incomes.  Note the outlier Cuming county redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) mapplot(stco ~ crop + animal, data = dat, colramp=redblue,         main=\"nebraska.farmincome\",         xlab=\"Farm income from animals and crops (million $ per county)\",         scales = list(draw = FALSE),          map = map('county', 'nebraska', plot = FALSE, fill = TRUE,           projection = \"mercator\") )  # Now scale to income/mile^2 dat <- within(dat, {   crop.rate <- crop/area   animal.rate <- animal/area }) # And use manual breakpoints. mapplot(stco ~ crop.rate + animal.rate, data = dat, colramp=redblue,         main=\"nebraska.farmincome: income per square mile (percentile breaks)\",         xlab=\"Farm income (million $ / mi^2) from animals and crops\",         scales = list(draw = FALSE),          map = map('county', 'nebraska', plot = FALSE, fill = TRUE,           projection = \"mercator\"),         # Percentile break points         # breaks=quantile(c(dat$crop.rate, dat$animal.rate),         #                 c(0,.1,.2,.4,.6,.8,.9,1), na.rm=TRUE)         # Fisher-Jenks breakpoints via classInt package         # breaks=classIntervals(na.omit(c(dat$crop.rate, dat$animal.rate)),         #                       n=7, style='fisher')$brks         breaks=c(0,.049, .108, .178, .230, .519, .958, 1.31))  }"},{"path":"/reference/nonnecke.peas.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of canning peas — nonnecke.peas.uniformity","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"Uniformity trial canning peas southern Alberta, 1957.","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"","code":"data(\"nonnecke.peas.uniformity\")"},{"path":"/reference/nonnecke.peas.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"data frame 540 observations following 5 variables. block block factor row row col column vines vines weight, pounds peas shelled peas weight, pounds","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"Width basic plot 10 feet, length 5 feet, limited   viner. two blocks/locations, planting consisted 18 rows   (15 rows harvested) 10 feet wide 90 feet   long. Rows separated 7 foot bare ground facilitate   harvesting. Nonnecke 1960 shows map one block. Plots harvested five foot mower. Vines   plot weighed, shelled.  two blocks/locations   side side combined Nonnecke. optimum plot size found   5 feet long 10 feet wide. Field width: 15 rows * 10 ft/row + 14 gaps * 7 ft/gap = 248 feet Field length: 18 plots * 5 ft/plot = 90 feet","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"Ib Libner Nonnecke. 1958.   Yield variability sweet corn canning peas affected plot size shape.   Thesis Oregon State College.   https://hdl.handle.net/1957/23367","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":". L. Nonnecke, 1960.   precision field experiments vegetable crops influenced plot block size shape: II. Canning peas.   Canadian Journal Plant Science, 40(2): 396-404.   https://doi.org/10.4141/cjps60-053","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"","code":"if (FALSE) {    library(agridat)      data(nonnecke.peas.uniformity)   dat <- nonnecke.peas.uniformity      libs(desplot)   desplot(dat, vines~col*row|block,           tick=TRUE, flip=TRUE, aspect=248/90, # true aspect           main=\"nonnecke.peas.uniformity - vines\")   desplot(dat, peas~col*row|block,           tick=TRUE, flip=TRUE, aspect=248/90, # true aspect           main=\"nonnecke.peas.uniformity - peas\")    libs(lattice)   xyplot(peas~vines|block,dat,          xlab=\"vine weight\", ylab=\"shelled pea weight\",          main=\"nonnecke.peas.uniformity\")  }"},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"Uniformity trials sweet corn Alberta, 1956.","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"","code":"data(\"nonnecke.sweetcorn.uniformity\")"},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"data frame: loc location row row col column yield yield marketable ears, pounds","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"Experiments conducted three locations Southern Alberta   Lethbridge, Vauxhall, Cranford 1956. Plot layout 32 rows,   179 feet long, allowing 18 ten-foot plots per row. Rows 3   feet apart, thinned one foot plants.  double guard row   surrounded entire plot.  two persons assigned   harvest corn locations.  576 plots harvested   one day. Optimal plot sizes found 10ft x 6ft 20ft   3ft. R data uses row/column plot/row. Field width: 18 plots * 10 ft = 180 feet Field length: 32 rows * 3 ft = 96 feet","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"Ib Libner Nonnecke. 1958.   Yield variability sweet corn canning peas affected plot size shape.   Thesis Oregon State College.   https://hdl.handle.net/1957/23367","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":". L. Nonnecke, 1959.   precision field experiments vegetable crops influenced plot block size shape: . Sweet corn.   Canadian Journal Plant Science, 39(4): 443-457. Tables 1-7.   https://doi.org/10.4141/cjps59-061","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"","code":"if (FALSE) {    library(agridat)      # Corn 1   data(nonnecke.sweetcorn.uniformity)   dat <- nonnecke.sweetcorn.uniformity    libs(desplot)   desplot(dat, yield~col*row|loc,           flip=TRUE, tick=TRUE, aspect=96/180, # true aspect           main=\"nonnecke.sweetcorn.uniformity\")      }"},{"path":"/reference/obsi.potato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"Uniformity trial potato Africa 2001","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"","code":"data(\"obsi.potato.uniformity\")"},{"path":"/reference/obsi.potato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"data frame 2569 observations following 4 variables. loc location, 2 levels row row col column yield yield, kg/m^2","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"Data collected potato uniformity trials Hollota (L1) Kulumsa (L2).   field 0.15 hectares. field, 75cm rows 60cm plants. basic   units harvested 1.2m x 1.5m. clear way plots   oriented field respect rows columns. location L1, plot (10,7) 22.5 source document,   changed 2.25 electronic data. Hollota: Field width: 26 * 1.2 m Field length: 63 rows * 1.5 m Note horizontal banding 8 9 rows location L1. Kulumsa Field width: 19 * 1.2 m Field length: 49 * 1.5 m","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"Dechassa Obsi. 2008.   Application Spatial Modeling Study Soil Fertility Pattern.   MS Thesis, Addis Ababa University. Page 122-125.   https://etd.aau.edu.et/handle/123456789/3221","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"None.","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(obsi.potato.uniformity) dat <- obsi.potato.uniformity    # Mean plot yield according to Obsi p. 54   # libs(dplyr)   # dat <- group_by(dat, loc)   # summarize(dat, yield=mean(yield))   ##   loc   yield   ##   <fct> <dbl>   ## 1 L1     2.54 # Obsi says 2.55   ## 2 L2     5.31 # Obsi says 5.36  libs(desplot) desplot(dat, yield ~ col*row, subset=loc==\"L1\",   main=\"obsi.potato.uniformity - loc L1\",   flip=TRUE, tick=TRUE) desplot(dat, yield ~ col*row, subset=loc==\"L2\",   main=\"obsi.potato.uniformity - loc L2\",   flip=TRUE, tick=TRUE) }"},{"path":"/reference/odland.soybean.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Uniformity trials soy hay soybeans Virginia Experiment   Station, 1925-1926.","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Data frames 3 variables. row row col column yield yield: hay tons/acre, beans bushels/acre","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Grown West Virginia Experiment Station 1925 & 1926. Soy forage hay: 1925 crop harvested forage, 42 rows, 200 feet long.   Yields 8-foot plats recorded nearest 0.1 tons. Field width: 42 plots * 30 / 12in/ft = 105 ft Field length: 24 plots * 8 feet = 192 feet + border = total 200 feet. Note, hay data Odland & Garber measured 0.1 tons,   converted tons . Soy beans: Soybeans planted rows 30 inches apart.   1926 crop harvested seed, 55 rows, 232 feet long.   Yields 8-foot plats recorded.   1926, data last row page 96 seems missing. Field width: 55 plots * 30 / 12in/ft = 137.5 feet Field length: 28 plots * 8 feet = 224 feet + border = total 232 feet. Odland Garber provide agronomic context yield variation.","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Odland, T.E. Garber, R.J. (1928).   Size Plat Number Replications Field Experiments   Soybeans.   Agronomy Journal, 20, 93--108.   https://doi.org/10.2134/agronj1928.00021962002000020002x","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"","code":"if (FALSE) {  library(agridat)      libs(desplot)    data(odland.soyhay.uniformity)   dat1 <- odland.soyhay.uniformity   desplot(dat1, yield ~ col*row,           flip=TRUE, aspect=200/105, # true aspect           main=\"odland.soyhay.uniformity\")    data(odland.soybean.uniformity)   dat2 <- odland.soybean.uniformity   desplot(dat2, yield ~ col*row,           flip=TRUE, aspect = 232/137,            main=\"odland.soybean.uniformity\")    }"},{"path":"/reference/omer.sorghum.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"Multi-environment trial sorghum, 6 environments","code":""},{"path":"/reference/omer.sorghum.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"","code":"data(\"omer.sorghum\")"},{"path":"/reference/omer.sorghum.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"data frame 432 observations following 4 variables. env environment rep replication gen genotype factor yield yield, kg/ha","code":""},{"path":"/reference/omer.sorghum.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"Trials conducted Sudan, 3 years 2 locations, 4 reps RCBD   location. year location combined form 6   environments. environments given data,   individual year location.","code":""},{"path":"/reference/omer.sorghum.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"Siraj Osman Omer, Abdel Wahab Hassan Abdalla, Mohammed Hamza Mohammed, Murari Singh (2015).   Bayesian estimation genotype--environment interaction sorghum variety trials   Communications Biometry Crop Science, 10 (2), 82-95. Electronic data provided Siraj Osman Omer.","code":""},{"path":"/reference/omer.sorghum.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"None.","code":""},{"path":"/reference/omer.sorghum.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"","code":"if (FALSE) {  library(agridat)  data(omer.sorghum) dat <- omer.sorghum  # REML approach libs(lme4) libs(lucid)  # 1 loc, 2 years. Match Omer table 1. m1 <- lmer(yield ~ 1 + env + (1|env:rep) + (1|gen) + (1|gen:env),            data=subset(dat, is.element(env, c('E2','E4')))) vc(m1) ##      grp        var1 var2    vcov  sdcor ##  gen:env (Intercept) <NA> 17050   130.6 ##      gen (Intercept) <NA>  2760    52.54 ##  env:rep (Intercept) <NA>   959.1  30.97 ## Residual        <NA> <NA> 43090   207.6  # 1 loc, 3 years. Match Omer table 1. m2 <- lmer(yield ~ 1 + env + (1|env:rep) + (1|gen) + (1|gen:env),            data=subset(dat, is.element(env, c('E2','E4','E6')))) vc(m2) ##      grp        var1 var2  vcov  sdcor ##  gen:env (Intercept) <NA> 22210 149 ##      gen (Intercept) <NA>  9288  96.37 ##  env:rep (Intercept) <NA>  1332  36.5 ## Residual        <NA> <NA> 40270 200.7  # all 6 locs. Match Omer table 3, frequentist approach m3 <- lmer(yield ~ 1 + env + (1|env:rep) + (1|gen) + (1|gen:env),            data=dat) vc(m3) ##       grp        var1 var2  vcov  sdcor ##   gen:env (Intercept) <NA> 21340 146.1 ##   env:rep (Intercept) <NA>  1152  33.95 ##       gen (Intercept) <NA>  1169  34.2 ##  Residual        <NA> <NA> 24660 157 }"},{"path":"/reference/onofri.winterwheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"Multi-environment trial winter wheat, 7 years, 8 gen","code":""},{"path":"/reference/onofri.winterwheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"","code":"data(\"onofri.winterwheat\")"},{"path":"/reference/onofri.winterwheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"data frame 168 observations following 5 variables. year year, numeric block block, 3 levels plot plot, numeric gen genotype, 7 levels yield yield plot","code":""},{"path":"/reference/onofri.winterwheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"Yield 8 durum winter wheat varieties across 7 years 3 reps. Downloaded electronic version Nov 2015:   https://www.casaonofri./Biometry/index.html Used permission Andrea Onofri.","code":""},{"path":"/reference/onofri.winterwheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"Andrea Onofri, Egidio Ciriciofolo (2007).   Using R Perform AMMI Analysis Agriculture Variety Trials.   R News, Vol. 7, . 1, pp. 14-19.","code":""},{"path":"/reference/onofri.winterwheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"F. Mendiburu.   AMMI.   https://tarwi.lamolina.edu.pe/~fmendiburu/AMMI.htm . Onofri.   https://accounts.unipg./~onofri/RTutorial/CaseStudies/WinterWheat.htm","code":""},{"path":"/reference/onofri.winterwheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"","code":"library(agridat) data(onofri.winterwheat) dat <- onofri.winterwheat dat <- transform(dat, year=factor(dat$year))  m1 <- aov(yield ~ year + block:year + gen + gen:year, dat) anova(m1) # Matches Onofri figure 1 #> Analysis of Variance Table #>  #> Response: yield #>            Df  Sum Sq Mean Sq  F value    Pr(>F)     #> year        6 159.279 26.5466 178.3996 < 2.2e-16 *** #> gen         7  11.544  1.6491  11.0824 2.978e-10 *** #> year:block 14   3.922  0.2801   1.8826   0.03738 *   #> year:gen   42  27.713  0.6598   4.4342 6.779e-10 *** #> Residuals  98  14.583  0.1488                        #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1  libs(agricolae) m2 <- AMMI(dat$year, dat$gen, dat$block, dat$yield) plot(m2) title(\"onofri.winterwheat - AMMI biplot\")"},{"path":"/reference/ortiz.tomato.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"Multi-environment trial tomato Latin America, weight/yield environmental covariates","code":""},{"path":"/reference/ortiz.tomato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"","code":"data(\"ortiz.tomato.covs\")   data(\"ortiz.tomato.yield\")"},{"path":"/reference/ortiz.tomato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"ortiz.tomato.covs data frame 18 observations following 18 variables. env environment Day degree days (base 10) Dha days harvest Driv drivings (0/1) ExK extra potassium (kg / ha) ExN extra nitrogen (kg / ha) ExP extra phosphorous (kg / ha) Irr irrigation (0/1) K potassium (/100 g) Lat latitude Long longitude MeT mean temperature (C) MnT min temperature (C) MxT max temperature (C) OM organic matter (percent) P phosphorous (ppm) pH soil pH Prec precipitation (mm) Tri trimming (0/1) ortiz.tomato.yield data frame 270 observations following 4 variables. env environment gen genotype yield marketable fruit yield t/ha weight fruit weight, g","code":""},{"path":"/reference/ortiz.tomato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"environment locations : Used permission Rodomiro Ortiz.","code":""},{"path":"/reference/ortiz.tomato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"Rodomiro Ortiz Jose Crossa Mateo Vargas Juan Izquierdo, 2007.   Studying Effect Environmental Variables Genotype x   Environment Interaction Tomato.   Euphytica, 153, 119--134.   https://doi.org/10.1007/s10681-006-9248-7","code":""},{"path":"/reference/ortiz.tomato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"","code":"if (FALSE) {  library(agridat) data(ortiz.tomato.covs) data(ortiz.tomato.yield)  libs(pls, reshape2) # Double-centered yield matrix Y <- acast(ortiz.tomato.yield, env ~ gen, value.var='yield') Y <- sweep(Y, 1, rowMeans(Y, na.rm=TRUE)) Y <- sweep(Y, 2, colMeans(Y, na.rm=TRUE))  # Standardized covariates X <- ortiz.tomato.covs rownames(X) <- X$env X <- X[,c(\"MxT\", \"MnT\", \"MeT\", \"Prec\", \"Day\", \"pH\", \"OM\", \"P\", \"K\",           \"ExN\", \"ExP\", \"ExK\", \"Trim\", \"Driv\", \"Irr\", \"Dha\")] X <- scale(X)  # Now, PLS relating the two matrices. # Note: plsr deletes observations with missing values  m1 <- plsr(Y~X) # Inner-product relationships similar to Ortiz figure 1. biplot(m1, which=\"x\", var.axes=TRUE, main=\"ortiz.tomato - env*cov biplot\") #biplot(m1, which=\"y\", var.axes=TRUE) }"},{"path":"/reference/pacheco.soybean.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"Yields 18 soybean genotypes 11 environments Brazil.","code":""},{"path":"/reference/pacheco.soybean.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"gen genotype, 18 levels env environment, 11 levels yield yield, kg/ha","code":""},{"path":"/reference/pacheco.soybean.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"environment used RCB design 3 reps.  means   reps shown . Used permission Robert Pacheco.","code":""},{"path":"/reference/pacheco.soybean.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"R M Pacheco, J B Duarte, R Vencovsky, J B Pinheiro, B Oliveira,   (2005). Use supplementary genotypes AMMI analysis.   Theor Appl Genet, 110, 812-818.   https://doi.org/10.1007/s00122-004-1822-6","code":""},{"path":"/reference/pacheco.soybean.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"","code":"if (FALSE) {  library(agridat) data(pacheco.soybean) dat <- pacheco.soybean  # AMMI biplot similar to Fig 2 of Pacheco et al. libs(agricolae) m1 <- with(dat, AMMI(env, gen, REP=1, yield)) bip <- m1$biplot[,1:3] # Fig 1 of Pacheco et al. with(bip, plot(yield, PC1, cex=0.0,                text(yield,PC1,labels=row.names(bip), col=\"blue\"),                xlim=c(1000,3000),main=\"pacheco.soybean - AMMI biplot\",frame=TRUE)) with(bip[19:29,], points(yield, PC1, cex=0.0,                          text(yield,PC1,labels=row.names(bip[19:29,]),                               col=\"darkgreen\")))  }"},{"path":"/reference/paez.coffee.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of coffee — paez.coffee.uniformity","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"Uniformity trial coffee Caldas Columbia","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"","code":"data(\"paez.coffee.uniformity\")"},{"path":"/reference/paez.coffee.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"data frame 4190 observations following 5 variables. plot plot number row row col column year year yield yield per tree, kilograms","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"field map Paez page 56, plots 1 838.   data tables page 79-97 data plots 1 900. Note: 'row' ordinate data imply rows   columns perpendicular. field map page 56 Paez shows   rows 90-degree angle compared columns,   60-degree angle compared columns.    words, columns vertical, rows sloping right   30 degrees. Paez looks blocks 1,2,...36 trees size.   Page 30 shows annual CV.","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"Gilberto Paez Bogarin (1962).   Estudios sobre tamano y forma de parcela para ensayos en cafe.   Instituto Interamericano de Ciencias Agricolas de la O.E.. Centro Tropical de Investigacion y Ensenanza para Graduados. Costa Rica.   https://hdl.handle.net/11554/1892","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"None","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(paez.coffee.uniformity) dat <- paez.coffee.uniformity  libs(reshape2, corrgram)   datt <- acast(dat, plot ~ year)   corrgram(datt, lower.panel=panel.pts,            main=\"paez.coffee.uniformity\")   # Not quite right. The rows are not actually horizontal.  See notes above. libs(desplot) desplot(dat, yield ~ col*row,subset=year==\"Y1\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y1\") desplot(dat, yield ~ col*row,subset=year==\"Y2\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y2\") desplot(dat, yield ~ col*row,subset=year==\"Y3\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y3\") desplot(dat, yield ~ col*row,subset=year==\"Y4\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y4\") desplot(dat, yield ~ col*row,subset=year==\"Y5\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y5\")  }"},{"path":"/reference/panse.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — panse.cotton.uniformity","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"Uniformity trial cotton India 1934.","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"","code":"data(\"panse.cotton.uniformity\")"},{"path":"/reference/panse.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"data frame 1280 observations following 3 variables. row row col column yield total yield per plot, grams","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"uniformity trial cotton Institute Plant Industry, Indore, India.  trial consisted 128 rows cotton spacing 14 inches   rows length 186 feet 8 inches. harvested plot 4 rows wide  4 ft 8 long, measuring 1/2000 acre. Four pickings made Nov 1933 Jan 1934. data total yields. fertility map shows appreciable variation, following   systematic pattern. Field length: 40 plots * 4 feet 8 inches = 206 feet 8 inches Field width: 32 plots * 4 rows/plot * 14 inches/row = 150 feet Conclusions: Lower error obtained plots long rows   instead across rows. data typed K.Wright Panse (1941) p. 864-865.","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"V. G. Panse (1941).   Studies technique field experiments. V. Size shape   blocks arrangements plots cotton trials.    Indian Journal Agricultural Science, 11, 850-867   https://archive.org/details/.ernet.dli.2015.271747/page/n955","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"Hutchinson, J. B. V. G. Panse (1936).   Studies technique field experiments. . Size, shape   arrangement plots cotton trials.    Indian J. Agric. Sci., 5, 523-538.   https://archive.org/details/.ernet.dli.2015.271739/page/n599 V.G. Panse P.V. Sukhatme. (1954).   Statistical Methods Agricultural Workers.   First edition page 137. Fourth edition, page 131.","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(panse.cotton.uniformity) dat <- panse.cotton.uniformity    # match the CV of Panse 1954 # sd(dat$yield)/mean(dat$yield) * 100 # 32.1    # match the fertility map of Hutchinson, fig 1 libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=207/150, # true aspect         main=\"panse.cotton.uniformity\")  }"},{"path":"/reference/parker.orange.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oranges — parker.orange.uniformity","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"Uniformity trial oranges Riverside, CA, 1921-1927.","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"","code":"data(\"parker.orange.uniformity\")"},{"path":"/reference/parker.orange.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"data frame 1364 observations following 4 variables. year year row row col column yield yield, pounds/tree plot","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"orchard naval oranges planted 1917 University   California Citrus Experiment Station Riverside.  orchard   maintained uniform conditions 10 years. Eight Washington Navel orange trees single row constituted   plot. planting distance 20 feet trees within row   24 feet rows.  Every row guard row, row 2   row 4 observational units, row 3 guard row.   example, row 2 row 4 2*24 = 48 feet.  Another way think   plot 48 feet wide, middle 24   feet harvested.  end plot one guard   tree. Including guard trees row ends, row plot 10   trees * 20 feet = 200 feet long. Field width (west-east) 10 plots * 200 feet =  2000 feet. Field length (north-south) 27 plots * 48 feet =  1296 feet. investigation variability plots included   systematic soil surveys, soil moisture, soil nitrates, inspection   differences infestation citrus nematode. None   factors considered primary cause variations   yield. 7 years uniformity trials, different treatments   applied plots. Parker et al. state soil heterogeneity considerable   first-year yields predictive future yields. Table 25 mean top volume per tree plot 1926.   Table 26 mean area trunk cross section.","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"E. R. Parker & L. D. Batchelor. (1932).   Variation Yields Fruit Trees Relation Planning Future Experiments.   Hilgardia, 7(2), 81-161. Tables 3-9.   https://doi.org/10.3733/hilg.v07n02p081","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"Batchelor, L. D. (Leon Dexter), b. 1884; Parker, E. R. (Edwin Robert), 1896-1952; McBride, Robert, d. 1927. (1928)   Studies preliminary establishment series fertilizer   trials bearing citrus grove.    Vol B451. Berkeley, Cal. : Agricultural Experiment Station   https://archive.org/details/studiesprelimina451batc","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"","code":"if (FALSE) {  library(agridat)  data(parker.orange.uniformity) dat <- parker.orange.uniformity  # Parker fig 2, field plan libs(desplot) dat$year <- factor(dat$year) # 27 rows * 48 ft x 10 cols * 200 feet desplot(dat, yield ~ col*row|year,         flip = TRUE, aspect = 27*48/(10*200), # true aspect         main = \"parker.orange.uniformity\")  # CV across plots in each year. Similar to Parker table 11 cv <- function(x) {   x <- na.omit(x)   sd(x)/mean(x) } round(100*tapply(dat$yield, dat$year, cv),2)   # Correlation of plot yields across years. Similar to Parker table 15. # Paker et al may have calculated correlation differently. libs(reshape2) libs(corrgram) dat2 <- acast(dat, row+col ~ year, value.var = 'yield') round(cor(dat2, use = \"pair\"),3) corrgram(dat2, lower = panel.pts, upper = panel.conf,          main=\"parker.orange.uniformity\")   # Fertility index. Mean across years (ignoring 1921). Parker table 16 dat3 <- aggregate(yield ~ row+col, data = subset(dat, year !=1921 ),                   FUN = mean, na.rm = TRUE) round(acast(dat3, row ~ col, value.var = 'yield'),0)  libs(desplot) desplot(dat3, yield ~ col*row,         flip = TRUE, aspect = 27*48/(10*200), # true aspect         main = \"parker.orange.uniformity - mean across years\")  }"},{"path":"/reference/patterson.switchback.html","id":null,"dir":"Reference","previous_headings":"","what":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"Switchback experiment dairy cattle, milk yield 4 treatments","code":""},{"path":"/reference/patterson.switchback.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"","code":"data(\"patterson.switchback\")"},{"path":"/reference/patterson.switchback.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"data frame 36 observations following 4 variables. y response, milk FCM trt treatment factor, 4 levels period period factor, 3 levls cow cow factor, 12 levels","code":""},{"path":"/reference/patterson.switchback.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"three periods.  cow assigned one treatment cycle   like T1-T2-T1, T1 treatment period P1 P3, T2   treatment period P2. four treatments. 4*3 = 12 treatment cycles represented. Data extracted Lowry, page 70.","code":""},{"path":"/reference/patterson.switchback.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"Patterson, H.D. Lucas, H.L. 1962.   Change-designs.   Technical Bulletin 147, North Carolina Agricultural Experimental Station.","code":""},{"path":"/reference/patterson.switchback.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"Lowry, S.R. 1989.   Statistical design analysis dairy nutrition experiments   improve detection milk response differences.   Proceedings Conference Applied Statistics Agriculture, 1989.   https://newprairiepress.org/agstatconference/1989/proceedings/7/","code":""},{"path":"/reference/patterson.switchback.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"","code":"if (FALSE) {  library(agridat) data(patterson.switchback) dat <- patterson.switchback  # Create groupings for first treatment, second treatment datp1 <- subset(dat, period==\"P1\") datp2 <- subset(dat, period==\"P2\") dat$p1trt <- datp1$trt[match(dat$cow, datp1$cow)] dat$p2trt <- datp2$trt[match(dat$cow, datp2$cow)]                       libs(latticeExtra) useOuterStrips(xyplot(y ~ period|p1trt*p2trt, data=dat,                       group=cow, type=c('l','r'),                       auto.key=list(columns=5),                       main=\"patterson.switchback\",                       xlab=\"First/Third period treatment\",                        ylab=\"Second period treatment\"))   # Create a numeric period variable dat$per <- as.numeric(substring(dat$period,2))  # Need to use 'terms' to preserve the order of the model terms m1 <- aov(terms(y ~ cow + per:cow + period + trt, keep.order=TRUE), data=dat) anova(m1) # Match table 2 of Lowry ## Analysis of Variance Table ##           Df Sum Sq Mean Sq F value    Pr(>F) ## cow       11 3466.0 315.091 57.1773 2.258e-06 *** ## cow:per   12  953.5  79.455 14.4182 0.0004017 *** ## period     1   19.7  19.740  3.5821 0.0950382 . ## trt        3   58.3  19.418  3.5237 0.0685092 . ## Residuals  8   44.1   5.511  }"},{"path":"/reference/payne.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Long term rotation experiment at Rothamsted — payne.wheat","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"Long term rotation experiment Rothamsted","code":""},{"path":"/reference/payne.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"","code":"data(\"payne.wheat\")"},{"path":"/reference/payne.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"data frame 480 observations following 4 variables. rotation rotation treatment nitro nitrogen rate kg/ha year year yield metric tons per hectare","code":""},{"path":"/reference/payne.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"rotation treatments : AB = arable rotation spring barley.   AF = arable rotation bare fallow.   Ln3 = 3-year grass lay crops.   Ln8 = 8-year grass lay crops.   Lc3 = 3-year grass-clover lay crops.   Lc8 = 8-year grass-clover lay crops. full data available via CC-4.0 license :   Margaret Glendining, Paul Poulton, Andrew Macdonald, Chloe MacLaren,   Suzanne Clark (2022).    Dataset: Woburn Ley-arable experiment: yields wheat first test   crop, 1976-2018 Electronic Rothamsted Archive, Rothamsted Research.   https://doi.org/10.23637/wrn3-wheat7618-01 data used subset appearing paper Payne.","code":""},{"path":"/reference/payne.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"Payne, R. (2013)   Design analysis long-term rotation experiments.   Agronomy Journal, 107, 772-785.   https://doi.org/10.2134/agronj2012.0411","code":""},{"path":"/reference/payne.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"None","code":""},{"path":"/reference/payne.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"","code":"if (FALSE) {    library(agridat)   data(payne.wheat)   dat <- payne.wheat    # make factors   dat <- transform(dat,                    rotf = factor(rotation),                    yrf = factor(year),                    nitrof = factor(nitro))        # visualize the response to nitrogen   libs(lattice)   # Why does Payne use nitrogen factor, when it is an obvious polynomial term?   # Probably doesn't matter too much.   xyplot(yield ~ nitro|yrf, dat,          groups=rotf, type='b',          auto.key=list(columns=6),          main=\"payne.wheat\")      # What are the long-term trends?  Yields are decreasing   xyplot(yield ~ year | rotf, data=dat, groups=nitrof,          type='l', auto.key=list(columns=4))    if(require(\"asreml\", quietly=TRUE)){     libs(asreml) # Model 5: drop 3-way interaction and return to pol function (easier prediction)     m5 <- asreml(yield ~ rotf * nitrof * pol(year,2) -                    (rotf:nitrof:pol(year,2)),                  data=dat,                  random = ~yrf,                  residual = ~ dsum( ~ units|yrf))     summary(m5)$varcomp # Table 7 of Payne     # lucid::vc(m5)      # Table 8 of Payne     wald(m5, denDF=\"default\")           # Predictions of three-way interactions from final model     p5 <- predict(m5, classify=\"rotf:nitrof:year\")     p5 <- p5$pvals # Matches Payne table 8     head(p5)          # Plot the predictions.  Matches Payne figure 1     xyplot(predicted.value ~ year | rotf, data=p5,            groups=nitrof,            ylab=\"yield t/ha\", type='l', auto.key=list(columns=5))   }    }"},{"path":"/reference/pearce.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Apple tree yields for 6 treatments with covariate — pearce.apple","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"Apple tree yields 6 treatments covariate previous yield.","code":""},{"path":"/reference/pearce.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"data frame 24 observations following 4 variables. block block factor, 4 levels trt treatment factor, 6 levels prev previous yield boxes yield yield per plot","code":""},{"path":"/reference/pearce.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"Treatment 'S' standard practice English apple orchards   keeping land clean summer. previous yield number boxes fruit, four   seasons previous application treatments.","code":""},{"path":"/reference/pearce.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"S. C. Pearce (1953).   Field Experiments Fruit Trees     Perennial Plants.   Commonwealth Bureau Horticulture Plantation Crops, Farnham   Royal, Slough, England, App. IV.","code":""},{"path":"/reference/pearce.apple.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"James G. Booth, Walter T. Federer, Martin T. Wells Russell   D. Wolfinger (2009). Multivariate Variance Components Model   Analysis Covariance Designed Experiments.   Statistical Science, 24, 223-237.","code":""},{"path":"/reference/pearce.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"","code":"if (FALSE) {  library(agridat) data(pearce.apple) dat <- pearce.apple  libs(lattice) xyplot(yield~prev|block, dat, main=\"pearce.apple\", xlab=\"previous yield\")  # Univariate fixed-effects model of Booth et al, using previous # yield as a covariate. m1 <- lm(yield ~ trt + block + prev, data=dat) # Predict values, holding the covariate at its overall mean of 8.3 newdat <- expand.grid(trt=c('A','B','C','D','E','S'),                       block=c('B1','B2','B3','B4'), prev=8.308333) newdat$pred <- predict(m1, newdata=newdat) # Average across blocks to get the adjusted mean, Booth et al. Table 1 tapply(newdat$pred, newdat$trt, mean) #        A        B        C        D        E        S # 280.4765 266.5666 274.0666 281.1370 300.9175 251.3357  # Same thing, but with blocks random libs(lme4) m2 <- lmer(yield ~ trt + (1|block) + prev, data=dat) newdat$pred2 <- predict(m2, newdata=newdat) tapply(newdat$pred2, newdat$trt, mean) #        A        B        C        D        E        S # 280.4041 266.5453 274.0453 281.3329 301.3432 250.8291  }"},{"path":"/reference/pearl.kernels.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"Counts yellow/white sweet/starchy kernels 4 maize   ears 15 observers.","code":""},{"path":"/reference/pearl.kernels.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"data frame 59 observations following 6 variables. ear ear, 8-11 obs observer, 1-15 ys number yellow starchy kernels yt yellow sweet ws white starchy wt white sweet","code":""},{"path":"/reference/pearl.kernels.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"ear white sweet corn crossed ear yellow starchy   corn.  F1 kernels cross grown sample four   ears harvested. F2 kernels ears classified   15 observers white/yellow sweet/starchy. Mendelian genetics, kernels occur   ratio 9 yellow starch, 3 white starch, 3 yellow sweet,   1 white sweet. observers following positions:","code":""},{"path":"/reference/pearl.kernels.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"Raymond Pearl, 1911.   Personal Equation Breeding Experiments Involving Certain   Characters Maize, Biol. Bull., 21, 339-366.   https://www.biolbull.org/cgi/reprint/21/6/339.pdf","code":""},{"path":"/reference/pearl.kernels.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"","code":"if (FALSE) {  library(agridat)  data(pearl.kernels) dat <- pearl.kernels  libs(lattice) xyplot(ys+yt+ws+wt~obs|ear, dat, type='l', as.table=TRUE,        auto.key=list(columns=4),        main=\"pearl.kernels\", xlab=\"observer\",ylab=\"kernels\",        layout=c(4,1), scales=list(x=list(rot=90)))  # Test hypothesis that distribution is 'Mendelian' 9:3:3:1 dat$pval <- apply(dat[, 3:6], 1, function(x)                   chisq.test(x, p=c(9,3,3,1)/16)$p.val) dotplot(pval~obs|ear, dat, layout=c(1,4), main=\"pearl.kernels\",         ylab=\"P-value for test of 9:3:3:1 distribution\")  }"},{"path":"/reference/pederson.lettuce.repeated.html","id":null,"dir":"Reference","previous_headings":"","what":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"Repeated measurements lettuce growth 3 treatments.","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"","code":"data(\"pederson.lettuce.repeated\")"},{"path":"/reference/pederson.lettuce.repeated.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"data frame 594 observations following 4 variables. plant plant number day day observation trt treatment weight weight","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"Experiment conducted greenhouse Silver Bay, Minnesota. Plants grown hydroponically. Treatment 1 9 plants per raft. Treatment 2 18 plants, treatment 3 36 plants. response variable weight plant, roots, soil, cup, water. plants measured repeatedly beginning Dec 1, ending Jan 9, plants harvested.","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"Levi Dawson Pederson (2015). Mixed Model Analysis Repeated Measures Lettuce Growth Thesis University Minnesota. Appendix C. https://scse.d.umn.edu/sites/scse.d.umn.edu/files/pedersonprojectthesis.pdf","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"None","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"","code":"if (FALSE) {  library(agridat) data(pederson.lettuce.repeated) dat <- pederson.lettuce.repeated  libs(lattice) dat <- dat[order(dat$day),] xyplot(weight ~ day|trt, dat, type='l', group=plant, layout=c(3,1), main=\"pederson.lettuce.repeated\")  # Pederson used this SAS MIXED model for unstructured covariance # proc mixed data=Project.Spacingdata;  # class trt plant day;  # model weight=trt day trt*day;  # repeated day / subject=plant type=un r rcorr;     # This should give the same results as SAS, but does not. libs(nlme) dat <- transform(dat, plant=factor(plant), day=factor(day)) datg <- groupedData(weight ~ day|plant, data=dat) un1 <- gls(weight ~ trt * day, data=datg,            correlation=corSymm(value=rep(.6,55), form = ~ 1 | plant),            control=lmeControl(opt=\"optim\", msVerbose=TRUE,                               maxIter=500, msMaxIter=500)) logLik(un1)*2 # nlme has 1955, SAS had 1898.6  # Comparing the SAS results in Pederson (page 16) and the nlme results, we notice # the SAS correlations in table 5.2 are unusually low for the first # column. The nlme results have a higher correlation in the first column # and just \"look\" better un1  }"},{"path":"/reference/perry.springwheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"Yields wheat cultivars introduced 1860-1982.  Grown 20 environments.","code":""},{"path":"/reference/perry.springwheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"","code":"data(\"perry.springwheat\")"},{"path":"/reference/perry.springwheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"data frame 560 observations following 6 variables. yield yield, kg/ha gen genotype/cultivar factor, 28 levels env environment factor, 20 levels site site factor year year, 1979-1982 yor year release, 1860-1982","code":""},{"path":"/reference/perry.springwheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"Twenty-eight significant wheat cultivars past   century Western  Australia, grown 20 field trials 4   years Central Eastern wheat-belt Australia. Wongan Hills site separate early late sown   trials 1979 1980.  Later sowing dates generally lower   yields. Note: Although indicated original paper, may   Merredin site 1979 also early/late sowing dates. Used permission Mario D'Antuono CSIRO Publishing.","code":""},{"path":"/reference/perry.springwheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"MW Perry MF D'Antuono. (1989).   Yield improvement associated characteristics Australian   spring wheat cultivars introduced 1860 1982.   Australian Journal Agricultural Research, 40(3), 457--472.   https://www.publish.csiro.au/nid/43/issue/1237.htm","code":""},{"path":"/reference/perry.springwheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"","code":"if (FALSE) {      library(agridat)   data(perry.springwheat)   dat <- perry.springwheat    libs(lattice)   xyplot(yield~yor|env, dat, type=c('p','r'), xlab=\"year of release\",          main=\"perry.springwheat\")      # Show a table of sites*year   # libs(latticeExtra)   # useOuterStrips(xyplot(yield~yor|site*factor(year), dat,   #                       type=c('p','r')))     # Perry reports a rate of gain of 5.8 kg/ha/year.  No model is given.   # We fit a model with separate intercept/slope for each env   m1 <- lm(yield ~ env + yor + env:yor, data=dat)   # Average slope across environments   mean(c(coef(m1)[21], coef(m1)[21]+coef(m1)[22:40]))   ## [1] 5.496781     # ----------    # Now a mixed-effects model.  Fixed overall int/slope.  Random env int/slope.    # First, re-scale response so we don't have huge variances   dat$y <- dat$yield / 100    libs(lme4)   # Use || for uncorrelated int/slope.  Bad model.  See below.   # m2 <- lmer(y ~ 1 + yor + (1+yor||env), data=dat)   ## Warning messages:   ## 1: In checkConv(attr(opt, \"derivs\"), opt$par, ctrl = control$checkConv,  :   ##   Model failed to converge with max|grad| = 0.55842 (tol = 0.002, component 1)   ## 2: In checkConv(attr(opt, \"derivs\"), opt$par, ctrl = control$checkConv,  :   ##   Model is nearly unidentifiable: very large eigenvalue   ##  - Rescale variables?;Model is nearly unidentifiable: large eigenvalue ratio   ##  - Rescale variables?    # Looks like lme4 is having trouble with variance of intercepts   # There is nothing special about 1800 years, so change the   # intercept -- 'correct' yor by subtracting 1800 and try again.   dat$yorc <- dat$yor - 1800   m3 <- lmer(y ~ 1 + yorc + (1+yorc||env), data=dat)      # Now lme4 succeeds.  Rate of gain is 100*0.0549 = 5.49   fixef(m3)   ## (Intercept)        yorc   ##  5.87492444  0.05494464    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     m3a <- asreml(y ~ 1 + yorc, data=dat, random = ~ env + env:yorc)     lucid::vc(m3)     ##      grp        var1 var2     vcov   sdcor     ##      env (Intercept) <NA> 11.61    3.407     ##    env.1        yorc <NA>  0.00063 0.02511     ## Residual        <NA> <NA>  3.551   1.884          lucid::vc(m3a)     ##           effect component std.error z.ratio      con     ##      env!env.var  11.61     4.385        2.6 Positive     ## env:yorc!env.var   0.00063  0.000236     2.7 Positive     ##       R!variance   3.551    0.2231      16   Positive   }    }"},{"path":"/reference/petersen.sorghum.cowpea.html","id":null,"dir":"Reference","previous_headings":"","what":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"Intercropping experiment sorghum/cowpea.","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"","code":"data(\"petersen.sorghum.cowpea\")"},{"path":"/reference/petersen.sorghum.cowpea.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"data frame 18 observations following 5 variables. block block srows sorghum rows crows cowpea rows syield sorghum yield, kg/ha cyield cowpea yield, kg/ha","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"intercropping experiment Tanzania.  treatments consisted   four ratios sorghum rows cowpea rows 1:4, 2:3, 3:2, 4:1. sole-crop yields 5 rows per crop also given (part   blocks).","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"Roger G Petersen (1994).   Agricultural Field Experiments.   Marcel Dekker Inc, New York.   Page 372.","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"None","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"","code":"if (FALSE) {  libs(agridat) data(petersen.sorghum.cowpea) dat <- petersen.sorghum.cowpea  # Petersen figure 10.4a tmp <- dat   with(tmp, plot(srows, syield + cyield,                col=\"blue\", type='l', xlim=c(0,5), ylim=c(0,4000)) ) with(tmp, lines(srows, syield) ) with(tmp, lines(srows, cyield, col=\"red\") ) title(\"Cow Pea (red), Sorghum (black), Total (blue)\") title(\"petersen.sorghum.cowpea\", line=0.5)  }"},{"path":"/reference/piepho.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — piepho.barley.uniformity","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"Uniformity trial barley Germany","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"","code":"data(\"piepho.barley.uniformity\")"},{"path":"/reference/piepho.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"data frame 1080 observations following 5 variables. row row ordinate col column ordinate yield yield per plot","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"Uniformity trial barley Ihinger Hof farm, conducted   University Hohenheim, Germany, 2007. Note: paper Piepho says \"trial 30 rows 36   columns. Plot widths 1.90 m along rows 3.73 m along columns.\"   confirmed variograms Figure 1.   clear \"along rows\" \"along columns\" means   English. However, SAS code supplement paper, called   \"PBR_1654_sm_example1.sas\", row=1-36, col=1-30.","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"H. P. Piepho & E. R. Williams (2010).   Linear variance models plant breeding trials.   Plant Breeding, 129, 1-8.   https://doi.org/10.1111/j.1439-0523.2009.01654.x","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"None","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"","code":"if (FALSE) {   data(piepho.barley.uniformity)    dat <- piepho.barley.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, aspect=(36*3.73)/(30*1.90),           main=\"piepho.barley.uniformity.csv\")    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,dplyr,lucid)     dat <- mutate(dat, x=factor(col), y=factor(row))     dat <- arrange(dat, x, y)        # Piepho AR1xAR1 model (in random term, NOT residual)     m1 <- asreml(data=dat,                  yield ~ 1,                   random = ~ x + y + ar1(x):ar1(y),                   residual = ~  units,                  na.action=na.method(x=\"keep\") )     m1 <- update(m1)     # Match Piepho table 3, footnote 4: .9671, .9705 for col,row correlation     # Note these parameters are basically at the boundary of the parameter     # space. Questionable fit.     lucid::vc(m1)   } }"},{"path":"/reference/piepho.cocksfoot.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"Multi-environment trial cock's foot, heading dates 25 varieties 7 yearsyears","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"","code":"data(\"piepho.cocksfoot\")"},{"path":"/reference/piepho.cocksfoot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"data frame 111 observations following 3 variables. gen genotype factor, 25 levels year year, numeric date heading date (days April 1)","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"data heading dates (days April 1 heading)  25 cock's foot   Dactylis glomerata varieties trials Hannover, Germany,   repeated seven years.  Values means replications. Piepho fits model similar Finlay-Wilkinson regression,   genotype environment swapped.","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"Hans-Pieter Piepho. (1999).   Fitting Regression Model Genotype--Environment Data Heading   Dates Grasses Methods Nonlinear Mixed Models.   Biometrics, 55, 1120-1128.   https://doi.org/10.1111/j.0006-341X.1999.01120.x","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"","code":"if (FALSE) {      library(agridat)   data(piepho.cocksfoot)   dat <- piepho.cocksfoot   dat$year <- factor(dat$year)      libs(lattice)   # Gaussian, not gamma distn   densityplot(~date|year, data=dat, main=\"piepho.cocksfoot - heading date\")    if(require(\"mumm\", quietly=TRUE)){     libs(mumm) # The mumm package can reproduce Piepho's results      levelplot(date ~ year*gen, dat)     # note mp(random,fixed)     mod3 <- mumm(date ~ -1 + gen + (1|year) + mp(year, gen), dat)          # Compare to Piepho table 3, \"full maximum likelihood\"     mod3$sigmas^2 # variances for year:gen, residual match     #        year mp year:gen    Residual      # 17.70287377  0.02944158  0.49024737          # mod3$par_fix # fixed genotypes match        # mod3$sdreport # estim/stderr     #               Estimate Std. Error     # nu          49.0393183 1.55038652     # nu          42.0889493 1.67597832     # nu          45.3411252 1.59818620     # etc        # mod3$par_rand # random year:gen match     # $`mp year:gen`     #        1990        1991        1992        1993        1994        1995      #  0.10595661 -0.05298523  0.08228274 -0.09629696 -0.11045540  0.29637268    }    }"},{"path":"/reference/polson.safflower.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of safflower — polson.safflower.uniformity","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"Uniformity trial safflower Farmington, Utah, 1962.","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"","code":"data(\"polson.safflower.uniformity\")"},{"path":"/reference/polson.safflower.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"data frame 1716 observations following 3 variables. row row col column yield yield (grams)","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"uniformity trial safflower Utah State University field   station Farmington, Utah, 1962.   field approximately 0.5 acres size, 110 x 189 feet.   four-row planter used, 22 inches rows.   Four rows either side 12 feet ends removed   harvesting. Yield threshed grain recorded grams. Field width: (52 rows + 8 border rows) * 22 =  110 ft Field length: 33 sections * 5ft + 2 borders * 12 ft = 189 ft","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"David Polson. 1964.   Estimation Optimum Size, Shape, Replicate Number Safflower Plots Yield Trials.   Utah State University, Graduate Theses Dissertations, 2979.   Table 6, p. 52.   https://digitalcommons.usu.edu/etd/2979","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"None.","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(polson.safflower.uniformity)   dat <- polson.safflower.uniformity      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=189/110, # true aspect           main=\"polson.safflower.uniformity\")    libs(agricolae)   libs(reshape2)   dmat <- acast(dat, row~col, value.var=\"yield\")   # Similar to Polson fig 4.   tab <- index.smith(dmat, col=\"red\",                      main=\"polson.safflower.uniformity - Smith Index\",                      xlab=\"Plot size in number of basic plots\")      # Polson p. 25 said CV decreased from 14.3 to 4.5   # for increase from 1 unit to 90 units.  Close match.   tab <- data.frame(tab$uniformity)    # Polson only uses log(Size) < 2 in his Fig 5, obtained slope -0.63   coef(lm(log(Vx) ~ log(Size), subset(tab, Size <= 6))) # -0.70    # Polson table 2 reported labor for   # K1, number of plots, 133 hours 75   # K2, size of plot, 43.5 hours 24   # Optimum plot size   # X = b K1 / ((1-b) K2)   # Polson suggests optimum plot size 2.75 to 11 basic plots    }"},{"path":"/reference/ratkowsky.onions.html","id":null,"dir":"Reference","previous_headings":"","what":"Onion yields for different densities at two locations — ratkowsky.onions","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Onion yields different densities two locations","code":""},{"path":"/reference/ratkowsky.onions.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"data frame contains following columns: density planting density (plants per square meter) yield yield (g / plant) loc location, Purnong Landing Virginia","code":""},{"path":"/reference/ratkowsky.onions.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Spanish white onions.","code":""},{"path":"/reference/ratkowsky.onions.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Ratkowsky, D. . (1983).   Nonlinear Regression Modeling: Unified Practical Approach.   New York: Marcel Dekker.","code":""},{"path":"/reference/ratkowsky.onions.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Ruppert, D., Wand, M.P. Carroll, R.J. (2003).   Semiparametric Regression. Cambridge University Press.   https://stat.tamu.edu/~carroll/semiregbook/","code":""},{"path":"/reference/ratkowsky.onions.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"","code":"if (FALSE) {  library(agridat) data(ratkowsky.onions) dat <- ratkowsky.onions  # Model inverse yield as a quadratic.  Could be better... libs(lattice) dat <- transform(dat, iyield = 1/yield) m1 <- lm(iyield ~ I(density^2)*loc, dat) dat$pred <- predict(m1)  libs(latticeExtra) foo <- xyplot(iyield ~ density, data=dat, group=loc, auto.key=TRUE,                main=\"ratkowski.onions\",ylab=\"Inverse yield\") foo + xyplot(pred ~ density, data=dat, group=loc, type='l')  }"},{"path":"/reference/reid.grasses.html","id":null,"dir":"Reference","previous_headings":"","what":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"Yields four grasses wide range nitrogen fertilizer,   conducted 3 years.","code":""},{"path":"/reference/reid.grasses.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"","code":"data(\"reid.grasses\")"},{"path":"/reference/reid.grasses.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"data frame 210 observations following 5 variables. nitro nitrogen, 21 numeric levels year Y1, Y2, Y3 gen genotype drymatter dry matter content protein protein content","code":""},{"path":"/reference/reid.grasses.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"Experiment Hannah Research Institute, Ayr. Single plots planted 4 different kinds grasses.  Within   plot, 21 nitrogen treatments randomized. Reid modeled dry matter yield four-parameter logistic curves   form y = - b exp(-cx^d).","code":""},{"path":"/reference/reid.grasses.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"D. Reid (1985).   comparison yield responses four grasses wide range nitrogen application rates.   J. Agric. Sci., 105, 381-387. Table 1 & 3.     https://doi.org/10.1017/S0021859600056434","code":""},{"path":"/reference/reid.grasses.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"None","code":""},{"path":"/reference/reid.grasses.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"","code":"if (FALSE) {      library(agridat)   data(reid.grasses)   dat <- reid.grasses    libs(latticeExtra)   foo <- xyplot(drymatter + protein ~ nitro|year, dat, group=gen,                 auto.key=list(columns=4),                 as.table=TRUE, type=c('p','l'),                 main=\"reid.grasses\",ylab=\"drymatter/protein trait value\",                 scales=list(y=list(relation=\"free\")))   combineLimits(foo)    # devtools::run_examples does NOT like groupedData   if (0){     libs(nlme)     dat2 <- dat     dat2$indiv <- paste(dat$year, dat$gen) # individual year+genotype curves          # use all data to get initial values     inits <- getInitial(drymatter ~ SSfpl(nitro, A, B, xmid, scal), data = dat2)     inits     ##         A          B       xmid       scal      ## -4.167902  12.139796  68.764796 128.313106      xvals <- 0:800     y1 <- with(as.list(inits), SSfpl(xvals, A, B, xmid, scal))     plot(drymatter ~ nitro, dat2)     lines(xvals,y1)          # must have groupedData object to use augPred     dat2 <- groupedData(drymatter ~ nitro|indiv, data=dat2)     plot(dat2)          # without 'random', all effects are included in 'random'     m1 <- nlme(drymatter ~ SSfpl(nitro, A, B, xmid,scale),                data= dat2,                fixed= A + B + xmid + scale ~ 1,                random = A + B + xmid + scale ~ 1|indiv,                start=inits)     fixef(m1)     summary(m1)     plot(augPred(m1, level=0:1),          main=\"reid.grasses - observed/predicted data\") # only works with groupedData object   } # if(0)   }"},{"path":"/reference/riddle.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Modified Latin Square experiments of wheat — riddle.wheat","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"Modified Latin Square experiments wheat two varieties 2 years","code":""},{"path":"/reference/riddle.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"","code":"data(\"riddle.wheat\")"},{"path":"/reference/riddle.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"data frame 650 observations following 7 variables. expt experiment strain strain rep replicate row row (nested column) year year yield yield, grams col column (group rows)","code":""},{"path":"/reference/riddle.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"experiment \"Baart\" varieties 1939 another   experiment \"White Federation\" varieties 1939. experiments   repeated 1940. experimental design Modified Latin Square.   5 reps, horizontal.   5 \"columns\". rep*column contains multiple plots   strain planted 16-foot row. Field length: 5 reps * 16 feet Field width: 25 30 rows, perhaps 0.5 feet rows Riddle & Baker note: Two strains, 5129 (Baart) 1617 (White   Federation) reversed position significantly LOWER 1939   significantly HIGHER general mean 1940.","code":""},{"path":"/reference/riddle.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"Riddle, O. C. G. . Baker. (1944).   Biases encountered large-scale yield tests.   Hilgardia, 16, 1-14.   https://doi.org/10.3733/hilg.v16n01p001","code":""},{"path":"/reference/riddle.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"None","code":""},{"path":"/reference/riddle.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"","code":"if (FALSE) {   library(agridat)   data(riddle.wheat)   dat <- riddle.wheat    datb39 <- subset(dat, expt==\"Baart\" & year==1939)   datb40 <- subset(dat, expt==\"Baart\" & year==1940)   datw39 <- subset(dat, expt==\"WhiteFed\" & year==1939)   datw40 <- subset(dat, expt==\"WhiteFed\" & year==1940)   # Match table 4, sections a, b, d, e   anova(aov(yield ~ factor(rep) + factor(col) + strain, datb39))   anova(aov(yield ~ factor(rep) + factor(col) + strain, datb40))   anova(aov(yield ~ factor(rep) + factor(col) + strain, datw39))   anova(aov(yield ~ factor(rep) + factor(col) + strain, datw40))    libs(desplot)   # Show the huge variaion between reps   dat$yrexpt <- paste0(dat$year, dat$expt)   desplot(dat, yield ~ row*rep|yrexpt, tick=TRUE, out1=col, main=\"riddle.wheat\",           aspect=(5*16)/(30*.5)) # Show the randomization was the same in each year (but not each expt). desplot(dat, strain ~ row*rep|yrexpt, tick=TRUE, out1=col, main=\"riddle.wheat\")  }"},{"path":"/reference/ridout.appleshoots.html","id":null,"dir":"Reference","previous_headings":"","what":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"Root counts propagated columnar apple shoots.","code":""},{"path":"/reference/ridout.appleshoots.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"","code":"data(\"ridout.appleshoots\")"},{"path":"/reference/ridout.appleshoots.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"data frame 270 observations following 4 variables. roots number roots per shoot trtn number shoots per treatment combination photo photoperiod, 8 16 bap BAP concentration, numeric","code":""},{"path":"/reference/ridout.appleshoots.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"270 micropropagated shoots columnar apple cultivar   Trajan.  rooting period, shoot tips length 1.0-1.5 cm   cultured media different concentrations cytokinin BAP   two growth chambers 8 16 hour photoperiod. response variable number roots 4 weeks 22 degrees C. Almost shoots 8 hour photoperiod rooted.  16   hour photoperiod half rooted. High BAP concentrations often inhibit root formation apples,   perhaps columnar varieties. Used permission Martin Ridout.","code":""},{"path":"/reference/ridout.appleshoots.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"Ridout, M. S., Hinde, J. P., Demetrio, C. G. B. (1998).   Models Count Data Many Zeros.   Proceedings 19th International Biometric Conference,   179-192.","code":""},{"path":"/reference/ridout.appleshoots.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"SAS. Fitting Zero-Inflated Count Data Models Using PROC GENMOD.   support.sas.com/rnd/app/examples/stat/GENMODZIP/roots.pdf","code":""},{"path":"/reference/ridout.appleshoots.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"","code":"if (FALSE) {    library(agridat) data(ridout.appleshoots) dat <- ridout.appleshoots  # Change photo and bap to factors dat <- transform(dat, photo=factor(photo), bap=factor(bap))  libs(lattice) # histogram(~roots, dat, breaks=0:18-0.5)  # For photo=8, Poisson distribution looks reasonable. # For photo=16, half of the shoots had no roots # Also, photo=8 has very roughly 1/45 as many zeros as photo=8, # so we anticipate prob(zero) is about 1/45=0.22 for photo=8. histogram(~roots|photo, dat, breaks=0:18-0.5, main=\"ridout.appleshoots\")    libs(latticeExtra)   foo.obs <- histogram(~roots|photo*bap, dat, breaks=0:18-0.5, type=\"density\",                        xlab=\"Number of roots for photoperiod 8, 16\",                        ylab=\"Density for BAP levels\",                        main=\"ridout.appleshoots\")   useOuterStrips(foo.obs)    # Ordinary (non-ZIP) Poisson GLM   m1 <- glm(roots ~ bap + photo + bap:photo, data=dat,             family=\"poisson\")   summary(m1) # Appears to have overdispersion   # ----- Fit a Zero-Inflated Poisson model -----  libs(pscl)  # Use SAS contrasts to match SAS output oo <- options(contrasts=c('contr.SAS','contr.poly'))  # There are unequal counts for each trt combination, which obviously affects # the distribution of counts, so use log(trtn) as an offset. dat$ltrtn <- log(dat$trtn)  # Ordinary Poisson GLM: 1 + bap*photo. # Zero inflated probability depends only on photoperiod: 1 + photo  m2 <- zeroinfl(roots ~ 1 + bap*photo | 1 + photo, data=dat,           dist=\"poisson\", offset=ltrtn) logLik(m2)      # -622.2283 matches SAS Output 1 -2 * logLik(m2) # 1244.457 Matches Ridout Table 2, ZIP, H*P, P summary(m2)     # Coefficients match SAS Output 3.  exp(coef(m2, \"zero\")) # Photo=8 has .015 times as many zeros as photo=16  # Get predicted _probabilities_  # Prediction data newdat <- expand.grid(photo=c(8,16), bap=c(2.2, 4.4, 8.8, 17.6)) newdat <- aggregate(trtn~bap+photo, dat, FUN=mean) newdat$ltrtn <- log(newdat$trtn)  # The predicted (Poisson + Zero) probabilities d2 <- cbind(newdat[,c('bap','photo')], predict(m2, newdata=newdat, type=\"prob\")) libs(reshape2) d2 <- melt(d2, id.var = c('bap','photo')) # wide to tall d2$xpos <- as.numeric(as.character(d2$variable)) foo.poi <- xyplot(value~xpos|photo*bap, d2, col=\"black\", pch=20, cex=1.5)  # Plot data and model foo.obs <- update(foo.obs, main=\"ridout.appleshoots: observed (bars) & predicted (dots)\") useOuterStrips(foo.obs + foo.poi)    # Restore contrasts options(oo)  }"},{"path":"/reference/robinson.peanut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of peanuts — robinson.peanut.uniformity","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"Uniformity trial peanuts North Carolina 1939, 1940.","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"","code":"data(\"robinson.peanut.uniformity\")"},{"path":"/reference/robinson.peanut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"data frame 1152 observations following 4 variables. row row col column yield yield grams/plot year year","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"Two crops peanuts grown North Carolina 1939 1940.   different field used year. block 36 rows 3 feet wide 200 feet long harvested 12.5 foot lengths. Field length: 36 plots * 12.5 feet = 200 feet Field width: 16 plots * 3 feet = 48 feet Widening plot effective increasing plot length   order reduce error. agrees results   uniformity studies. Assuming 30 percent total cost experiment proportional   size plots used, optimum plot size approximately   3.2 units.","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"H.F. Robinson J..Rigney P.H.Harvey (1948).   Investigations Peanut Plot Technique Peanuts.   Univ California Tech. Bul. 86.","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"None","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(robinson.peanut.uniformity)   dat <- robinson.peanut.uniformity    # Mean yield per year. Robinson has 703.9, 787.3   # tapply(dat$yield, dat$year, mean)   #     1939     1940    # 703.7847 787.8125       libs(desplot)   desplot(dat, yield ~ col*row|year,           flip=TRUE, tick=TRUE, aspect=200/48,           main=\"robinson.peanut.uniformity\")    }"},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Uniformity trial sugar beets","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"","code":"data(\"roemer.sugarbeet.uniformity\")"},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"data frame 192 observations following 4 variables. row row ordinate col column ordinate yield yield per plot, kg year year experiment","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Roemer p 27: Eigene Versuche mit Zuckerrüben, ausgeführt auf dem Neßthaler   Zuchtfeld des Kaiser-Wilhelm-Institutes, Bromberg, den Jahren 1916,   1917 und 1918. 1916 und 1918 war die Versuchsfläche ein und dieselbe,   6,80 groß und den beiden Jahren mit Original Klein-Wanzlebener   Zuckerrüben auf 30 X 40 cm bebaut. Vorfrucht für 1916 war Hafer, für   1918 Roggen; 1917 war eine andere Fläche, ebenfalls 6,80 groß, für   den Versuch benußt; gesät wurden zwei verschiedene Zuchten von Strube,   Schlanstedt. Beide Flächen sind von sehr gleichmäßiger   Bodenbeschaffenheit. Bei der Fläche 1916 und 1918 machte sich im   ersten Jahre bei den Reihen 31-33 eine geringe Stelle bemerkbar, die   1918 weit weniger Erscheinung trat. Die Bodenunterschiede sind   allen drei Jahren geringer als die durch die Versuchstechnik bedingten   Fehler. Translated: (Roemer) experiments sugar beets, carried   Neßthal breeding field Kaiser Wilhelm Institute, Bromberg,   years 1916, 1917 1918. 1916 1918 test area   one , 6.80 large original years   Klein-Wanzleben sugar beets cultivated 30 x 40 cm. previous   crop 1916 oats, 1918 rye; 1917 another area,   also 6.80 large, used experiment; Two different   varieties Strube, Schlanstedt sown. areas   uniform soil conditions. 1916 1918 area, small spot   noticeable rows 31-33 first year, much less   noticeable 1918. three years soil differences   smaller errors caused experimental technology. Field width: 2 plots * 17 m = 34 m Field length: 48 plots * 4.17 m = 200 m Total area = 34 m * 200 m = 6800 sq m = 6.8 . Cochran says: 96 plots, 1 row x 55.8 ft (17m).   Two sets (years) 1916 1918. Data typed K.Wright Roemer (1920).","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   Table 1, page 62.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180.","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"","code":"if (FALSE) {    library(agridat) data(roemer.sugarbeet.uniformity) dat <- roemer.sugarbeet.uniformity  libs(desplot) desplot(dat, yield~col*row|year,         aspect=(48*4.16)/(2*17), flip=TRUE, tick=TRUE,         main=\"roemer.sugarbeet.uniformity\")  }"},{"path":"/reference/rothamsted.brussels.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"RCB experiment brussels sprouts, 9 fertilizer treatments","code":""},{"path":"/reference/rothamsted.brussels.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"data frame 48 observations following 5 variables. row row col column yield yield saleable sprouts, pounds trt treatment, 9 levels block block, 4 levels","code":""},{"path":"/reference/rothamsted.brussels.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"block numbers arbitrary, may match orignal source. Plots 10 yards x 14 yards.  Plot orientation clear.","code":""},{"path":"/reference/rothamsted.brussels.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"Rothamsted Experimental Station Report 1934-36.   Brussels sprouts: effect sulphate ammonia, poultry manure, soot   rape dust, pp. 191-192. Harpenden: Lawes Agricultural Trust.","code":""},{"path":"/reference/rothamsted.brussels.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/rothamsted.brussels.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"","code":"if (FALSE) {    library(agridat) data(rothamsted.brussels) dat <- rothamsted.brussels  libs(lattice) bwplot(yield~trt, dat, main=\"rothamsted.brussels\")    libs(desplot)   desplot(dat, yield~col*row,           num=trt, out1=block, cex=1, # aspect unknown           main=\"rothamsted.brussels\")  }"},{"path":"/reference/rothamsted.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"RCB experiment oats, straw grain, 9 fertilizer treatments","code":""},{"path":"/reference/rothamsted.oats.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"","code":"data(\"rothamsted.oats\")"},{"path":"/reference/rothamsted.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"data frame 96 observations following 6 variables. block block trt fertilizer treatment 9 levels grain grain, pounds per plot straw straw, pounds per plot row row col column","code":""},{"path":"/reference/rothamsted.oats.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"Oats (Grey Winter) grown Rothamsted, Long Hoos field 1926. Values grain straw actual weights pounds. plot 1/40 acre.   plot dimensions given, Rothamsted report shows field square. treatment codes :   OA,OB,OC,OD = top dressing.   E/L = Early/late application.   S/M = Sulphate muriate ammonia.   1/2 = Single double dressing.","code":""},{"path":"/reference/rothamsted.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"Rothamsted Report 1925-26, p. 146.   https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1925-26-138-155   Electronic version data supplied David Clifford.","code":""},{"path":"/reference/rothamsted.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/rothamsted.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"","code":"if (FALSE) {      library(agridat)   data(rothamsted.oats)   dat <- rothamsted.oats       libs(desplot)   desplot(dat, grain~col*row,           out1=block, text=trt, cex=1, shorten=FALSE,           aspect=1,           main=\"rothamsted.oats\")   desplot(dat, straw~col*row,           out1=block, text=trt, cex=1, shorten=FALSE,           aspect=1,           main=\"rothamsted.oats\")       libs(lattice)   xyplot(grain~straw, dat,          main=\"rothamsted.oats\") # traits are correlated     if(0){     # compare to summary at bottom of page 146, first 3 columns     libs(dplyr)     dat = mutate(dat,                  nfert=trt, # number of fertilizer applications                  nfert=dplyr::recode(nfert,                                      \"oa\"=\"None\", \"ob\"=\"None\",                                      \"oc\"=\"None\", \"od\"=\"None\",                                      \"1se\"=\"Single\", \"1sl\"=\"Single\",                                      \"1me\"=\"Single\", \"1ml\"=\"Single\",                                      \"2se\"=\"Double\", \"2sl\"=\"Double\",                                      \"2me\"=\"Double\", \"2ml\"=\"Double\"))     # English ton = 2240 pounds, cwt = 112 pounds     # multiply by 40 to get pounds/acre     # divide by: 112 to get hundredweight/acre, 42 to get bushels/acre     # Avoid pipe operator in Rd examples!     dat <- group_by(dat, nfert)     dat <- summarize(dat, straw=mean(straw), grain=mean(grain))     dat <- mutate(dat, straw= straw * 40/112, grain = grain * 40/42)     ## # A tibble: 3 x 3     ##   nfert  straw grain     ##   <fct>  <dbl> <dbl>     ## 1 Single  50.3  78.9     ## 2 Double  53.7  77.7     ## 3 None    44.1  75.4   }  }"},{"path":"/reference/ryder.groundnut.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"RCB experiment groundut, wet dry yields","code":""},{"path":"/reference/ryder.groundnut.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"data frame 24 observations following 6 variables. block block row row col column gen genotype factor wet wet yield, kg/plot dry dry yield, kg/plot","code":""},{"path":"/reference/ryder.groundnut.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"Ryder (1981) uses data discuss importance looking   field plan experiment.  Based analysis residuals,   suggests varieties B block 3 may data   swapped.","code":""},{"path":"/reference/ryder.groundnut.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"K. Ryder (1981). Field plans: biometrician finds useful,   Experimental Agriculture, 17, 243--256. https://doi.org/10.1017/S0014479700011601","code":""},{"path":"/reference/ryder.groundnut.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"","code":"if (FALSE) {      library(agridat)   data(ryder.groundnut)   dat <- ryder.groundnut    # RCB model   m1 <- lm(dry~block+gen,dat)   dat$res1 <- resid(m1)    # Table 3 of Ryder.  Scale up from kg/plot to kg/ha   round(dat$res1 * 596.6,0)      # Visually.  Note largest positive/negative residuals are adjacent   libs(desplot)   desplot(dat, res1 ~ col + row,           text=gen, # aspect unknown           main=\"ryder.groundnut - residuals\")         libs(desplot)   # Swap the dry yields for two plots and re-analyze   dat[dat$block==\"B3\" & dat$gen==\"A\", \"dry\"] <- 2.8   dat[dat$block==\"B3\" & dat$gen==\"B\", \"dry\"] <- 1.4   m2 <- lm(dry~block+gen, dat)   dat$res2 <- resid(m2)   desplot(dat, res2 ~ col+row,           # aspect unknown           text=gen, main=\"ryder.groundnut\")  }"},{"path":"/reference/salmon.bunt.html","id":null,"dir":"Reference","previous_headings":"","what":"Fungus infection in varieties of wheat — salmon.bunt","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"Fungus infection varieties wheat","code":""},{"path":"/reference/salmon.bunt.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"data frame 400 observations following 4 variables. bunt bunt factor, 20 levels pct percent infected rep rep factor, 2 levels gen genotype factor, 10 levels","code":""},{"path":"/reference/salmon.bunt.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"Note: Salmon (1938) gives results 69 types bunt, just   20 shown paper. H. . Rodenhiser C. S. Holton (1937) say races two   different species bunt used, Tilletia tritici T. levis. data gives results 20 types bunt (fungus) winter   wheat varieties Kearneysville, W. Va., 1935. Altogether   69 types bunt included experiment, 20   data representative.  type wheat grown short   row (5 8 feet), seed innoculated   spores bunt.  entire seeding repeated   order. Infection recorded percentage total number heads   counted near harvest.  number counted seldom less 200   sometimes 400 per row.","code":""},{"path":"/reference/salmon.bunt.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"S.C. Salmon, 1938.   Generalized standard errors evaluating bunt experiments wheat.   Agronomy Journal, 30, 647--663.  Table 1.   https://doi.org/10.2134/agronj1938.00021962003000080003x","code":""},{"path":"/reference/salmon.bunt.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"Salmon says data came : H. . Rodenhiser C. S. Holton (1937).   Physiologic races Tilletia tritici T. levis.   Journal Agricultural Research, 55, 483-496.   naldc.nal.usda.gov/download/IND43969050/PDF","code":""},{"path":"/reference/salmon.bunt.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"","code":"if (FALSE) {    library(agridat) data(salmon.bunt) dat <- salmon.bunt  d2 <- aggregate(pct~bunt+gen, dat, FUN=mean) # average reps d2$gen <- reorder(d2$gen, d2$pct) d2$bunt <- reorder(d2$bunt, d2$pct) # Some wheat varieties (Hohenheimer) are resistant to all bunts, and some (Hybrid128) # are susceptible to all bunts.  Note the groups of bunt races that are similar, # such as the first 4 rows of this plot.  Also note the strong wheat*bunt interaction. libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(pct~gen+bunt,d2, col.regions=redblue,           main=\"salmon.bunt percent of heads infected\",           xlab=\"Wheat variety\", ylab=\"bunt line\")    # We don't have individual counts, so use beta regression   libs(betareg)   dat$y <- dat$pct/100 + .001 # Beta regression does not allow 0   dat$gen <- reorder(dat$gen, dat$pct) # For a prettier dot plot      m1 <- betareg(y ~ gen + bunt + gen:bunt, data=dat)      # Construct 95 percent confidence intervals   p1 <- cbind(dat,               lo = predict(m1, type='quantile', at=.025),               est = predict(m1, type='quantile', at=.5),               up = predict(m1, type='quantile', at=.975))   p1 <- subset(p1, rep==\"R1\")      # Plot the model intervals over the original data   libs(latticeExtra)   dotplot(bunt~y|gen, data=dat, pch='x', col='red',           main=\"Observed data and 95 pct intervals for bunt infection\") +             segplot(bunt~lo+up|gen, data=p1, centers=est, draw.bands=FALSE)     # To evaluate wheat, we probably want to include bunt as a random effect...  }"},{"path":"/reference/saunders.maize.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"Uniformity trial maize South Africa","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"","code":"data(\"saunders.maize.uniformity\")"},{"path":"/reference/saunders.maize.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"data frame 2500 observations following 4 variables. row row ordinate col column ordinate yield yield per plot, pounds year year","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"two maize uniformity trials conducted Potchefstroom   Experiment Station, South Africa. harvested unit plot 10 plants, planted 3 feet 3 feet   individual hills. Dataset 1928-1929 experiment Rows 41-43 missing. Field width: 4 plots * 10 yards = 40 yards Field length : 250 plots * 1 yard = 250 yards Dataset 1929-30 experiment Row 255 missing obvious edge effect first column. Field width: 5 plots * 20 yards = 100 yards Field length: 300 plots * 1 yard = 300 yards Two possible outliers 1929-30 data verified   correctly transcribed source document. data made available special help staff   Rothamsted Research Library. Rothamsted library scanned paper documents pdf. Screen captures   pdf saved jpg files, uploaded OCR conversion   site. resulting text 95 percent accurate   carefully hand-checked formatted csv files.","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"Rayner & . R. Saunders.   Statistical Methods, Special Reference Field Experiments.","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(saunders.maize.uniformity)   dat <- saunders.maize.uniformity    libs(desplot)    desplot(dat, yield ~ col*row, subset=year==1929,           flip=TRUE, aspect=250/40,           main=\"saunders.maize.uniformity 1928-29\")   desplot(dat, yield ~ col*row, subset=year==1930,           flip=TRUE, aspect=300/100,           main=\"saunders.maize.uniformity 1929-30\")  }"},{"path":"/reference/sawyer.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"Uniformity trials wheat, swedes, oats Rothamsted, England, 1925-1927.","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"","code":"data(\"sawyer.multi.uniformity\")"},{"path":"/reference/sawyer.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"data frame 48 observations following 7 variables. year year crop crop row row col column grain wheat/oats grain weight, pounds straw wheat/oats straw weight, pounds leafwt swedes leaf weight, pounds rootwt swedes root weight, pounds rootct swedes root count","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"experiment conducted Rothamsted, England, 1925-1927,   Sawyers Field. Row 6, column 1 planted year. 1925: Wheat harvested Row 1, column 1 partially missing data wheat values   1925 used Rothamsted summary statistics page 155. 1926: Swedes harvested 1927: Oats harvested Note summaries statistics bottom page report   calibrated ACRES. Field width: 8 plots * 22 feet = 528 feet Field length: 6 plots * 22 feet = 396 feet field 8 plots wide, 6 plots long.  plots drawn   source documents squares .098 acres (1 chain = 66 feet   side). Eden & Maskell (page 165) say field clover, ploughed   autumn 1924. field laid uniformly lands one   chain width plot width made coincide land width   ridge ridge. length plot also one chain   point view yield data trial comprised 47 plots   8x6 except run hedge allowed rank five plots   one ends.","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"Rothamsted Experimental Station, Report 1925-26.   Lawes Agricultural Trust, p. 154-155.   https://www.era.rothamsted.ac.uk/eradoc/book/84 Rothamsted Experimental Station, Report 1927-1928.   Lawes Agricultural Trust, p. 153.     https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1927-28-131-175","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"Eden, T. E. J. Maskell. (1928).   influence soil heterogeneity growth yield   successive crops.   Jour Agricultural Science, 18, 163-185.   https://archive.org/stream/.ernet.dli.2015.25895/2015.25895.Journal--Agricultural-Science-Vol-xviii-1928#page/n175 McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119--2143.   https://doi.org/10.1098/rspa.2006.1667 Winifred . Mackenzie. (1926)   Note remarkable correlation grain straw, obtained   Rothamsted.   Journal Agricultural Science, 16, 275-279.   https://doi.org/10.1017/S0021859600018256","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"","code":"if (FALSE) {      library(agridat)   data(\"sawyer.multi.uniformity\")   dat <- sawyer.multi.uniformity      libs(desplot)   # The field plan shows square plots   desplot(dat, grain~col*row,           subset= year==1925,           main=\"sawyer.multi.uniformity - 1925 wheat grain yield\",           aspect=(6)/(8)) # true aspect      desplot(dat, rootwt~col*row,           subset= year==1926,           main=\"sawyer.multi.uniformity - 1926 root weight of swedes\",           aspect=(6)/(8))    desplot(dat, grain~col*row, subset= year==1927,           main=\"sawyer.multi.uniformity - 1927 oats grain yield\",           aspect=(6)/(8))     # This plot shows the \"outlier\" in the wheat data reported by Mackenzie.   libs(lattice)   xyplot(grain ~ straw, data=subset(dat, year==1925))      round(cor(dat[,7:9], use=\"pair\"),2) # Matches McCullagh p 2121   ##        leafwt rootwt rootct   ## leafwt   1.00   0.66   0.47   ## rootwt   0.66   1.00   0.43   ## rootct   0.47   0.43   1.00      ## pairs(dat[,7:9],   ##       main=\"sawyer.multi.uniformity\")  }"},{"path":"/reference/sayer.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"Uniformity trial sugarcane India, 1932, 1933 & 1934.","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"","code":"data(\"sayer.sugarcane.uniformity\")"},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"data frame following 4 variables. row row col column yield yield, pounds/plot year year","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"1932 Experiment, 20 col x 48 row = 960 plots Sayer (1936a, page 685): tonnage Experiment sugarcane, Co. 205,   un-irrigated, conducted Harpur Jhilli 1932; 42 rows cane   space 3 ft rows selected cut sections,   section 30 feet 3 inches long. Thus yield figures   plot sizes 30 feet 3 inches 3 feet (.e. 1/480 acre ),   numbering 840 plots , available statistical   analysis ; convenience data yields first forty rows   also considered separately. Field width: 20 sections x 30 ft 3 = 605 feet Field length: 48 rows x 3 feet = 144 feet Note data Rothamsted library contains 48 rows,   missing values rows 43-48. may Sayer (1963b)   used 42 rows. ---------- 1933 Experiment, 8 col x 136 row = 1088 plots Sayer (1936a, page 688). experiment conducted 1933   Meghaul (Monghyr). road cut field, creating blocks   480 ft x 315 ft 480 ft x 93 ft. (See Plate XLI).    136 rows, 3 feet apart, 480 feet long .  required 16   days harvest 1088 plots. plot 1/242 acre. authors   conclude long narrow plots 12/242 16/242 acre   best. Field width: 8 plots * 60 feet = 480 feet Field length: 136 rows * 3 feet = 408 feet ---------- 1934 Experiment, 8 col x 121 row = 968 plots experiment conducted New Area, Pusa.  experiment   laid 6 blocks, separated 3-foot bund.    cutting canes began Jan 1934, taking 24 days. (earthquake   15 January delayed harvesting).   Conclusion: Variation reduced increasing plot size   9/242 acre. Field width: 8 plots * 60 feet = 480 feet Field length: 121 rows * 3 feet = 363 feet 1932 data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"1932 Data Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5. 1933 Data Wynne Sayer, M. Vaidyanathan S. Subrammonia Iyer (1936a).   Ideal size shape sugar-cane experimental plots based upon tonnage experiments Co 205 Co 213 conducted Pusa.   Indian J. Agric. Sci., 1936, 6, 684-714. Appendix, page 712.   https://archive.org/details/.ernet.dli.2015.271737 1934 data Wynne Sayer Krishna Iyer.  (1936b).   factors influence error field experiments special reference sugar cane.   Indian J. Agric. Sci., 1936, 6, 917-929. Appendix, page 927.   https://archive.org/details/.ernet.dli.2015.271737","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"None","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(sayer.sugarcane.uniformity)   dat32 <- subset(sayer.sugarcane.uniformity, year==1932)   dat33 <- subset(sayer.sugarcane.uniformity, year==1933)   dat34 <- subset(sayer.sugarcane.uniformity, year==1934)    # The 1933 data have a 15-foot road between row 105 & row 106.   # Add 5 to row number of row 106 and above.   dat33$row <- ifelse(dat33$row >= 106, dat33$row + 5, dat33$row)      b1 <- subset(dat33, row<31)   b2 <- subset(dat33, row > 30 & row < 61)   b3 <- subset(dat33, row > 60 & row < 91)   b4 <- subset(dat33, row > 105 & row < 136)   mean(b1$yield) # 340.7 vs Sayer 340.8   mean(b2$yield) # 338.2 vs Sayer 338.6   mean(b3$yield) # 331.3 vs Sayer 330.2   mean(b4$yield) # 295.4 vs Sayer 295.0    mean(dat34$yield) # 270.83 vs Sayer 270.83      libs(desplot)      desplot(dat33, yield ~ col*row,           flip=TRUE, aspect=408/480, # true aspect           main=\"sayer.sugarcane.uniformity 1933\")    desplot(dat34, yield ~ col*row,           flip=TRUE, aspect=363/480, # true aspect           main=\"sayer.sugarcane.uniformity 1934\")    }"},{"path":"/reference/senshu.rice.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Response rice solar radiation temperature","code":""},{"path":"/reference/senshu.rice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"data frame 40 observations following 7 variables. country country loc location year year planting, last two digits month month planting rad solar radiation mint minimum temperature yield yield t/ha","code":""},{"path":"/reference/senshu.rice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Minimum temperature average across 30 days post flowering. Opinion: Fitting quadratic model data makes sense.","code":""},{"path":"/reference/senshu.rice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Seshu, D. V. Cady, F. B. 1984.   Response rice solar radiation temperature estimated international yield trials.   Crop Science, 24, 649-654.   https://doi.org/10.2135/cropsci1984.0011183X002400040006x","code":""},{"path":"/reference/senshu.rice.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Walter W. Piegorsch, . John Bailer. (2005)   Analyzing Environmental Data, Wiley.","code":""},{"path":"/reference/senshu.rice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"","code":"if (FALSE) {    library(agridat)  data(senshu.rice) dat <- senshu.rice  # Model 1 of Senshu & Cady m1 <- lm(yield ~ 1 + rad + mint + I(mint^2), dat) coef(m1)  # Use Fieller to calculate conf int around optimum minimum temp # See: Piegorsch & Bailer, p. 31. # Calculation derived from vegan:::fieller.MOStest m2 <- lm(yield ~ 1 + mint + I(mint^2), dat) b1 <- coef(m2)[2] b2 <- coef(m2)[3] vc <- vcov(m2) sig11 <- vc[2,2] sig12 <- vc[2,3] sig22 <- vc[3,3] u <- -b1/2/b2 tval <- qt(1-.05/2, nrow(dat)-3) gam <- tval^2 * sig22 / b2^2 x <- u + gam * sig12 / (2 * sig22) f <- tval / (-2*b2) sq <- sqrt(sig11 + 4*u*sig12 + 4*u^2*sig22 - gam * (sig11 - sig12^2 / sig22) ) ci <- (x + c(1,-1)*f*sq) / (1-gam) plot(yield ~ mint, dat, xlim=c(17, 32), main=\"senshu.rice: Quadratic fit and Fieller confidence interval\",      xlab=\"Minimum temperature\", ylab=\"Yield\") lines(17:32, predict(m2, new=data.frame(mint=17:32))) abline(v=ci, col=\"blue\") }"},{"path":"/reference/shafi.tomato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tomato — shafi.tomato.uniformity","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"Uniformity trial tomato India","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"","code":"data(\"shafi.tomato.uniformity\")"},{"path":"/reference/shafi.tomato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"data frame 200 observations following 3 variables. row row ordinate col column ordinate yield yield, kg/plot","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"experiment conducted Regional Research Station Faculty   Agriculture, SKUAST-K Wadura Campus 2006. original data collected 1m x 1m plots. data   aggregated 2m x 2m plots. Field length: 20 row * 2 m = 40 m Field width: 10 col * 2 m = 20 m","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"Shafi, Sameera (2007).   Aspects Plot Techniques Field Experiments Tomato (Lycopersicon esculentum mill.) Soils Kashmir.   Thesis. Univ. Ag. Sciences & Technology Kashmir. Table 2.2.1.  https://krishikosh.egranth.ac./assets/pdfjs/web/viewer.html?file=https","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"Shafi, Sameera; S..Mir, Nageena Nazir, Anjum Rashid. (2010).   Optimum plot size tomato using S-PLUS R-software's soils Kashmir.   Asian J. Soil Sci., 4, 311-314.   http://researchjournal.co./upload/assignments/4_311-314.pdf","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(shafi.tomato.uniformity)   dat <- shafi.tomato.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           aspect=40/20, # true aspect           main=\"shafi.tomato.uniformity\") }"},{"path":"/reference/shafii.rapeseed.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"Rapeseed yield multi-environment trial, 6 genotypes, 3 years, 14 loc, 3 rep","code":""},{"path":"/reference/shafii.rapeseed.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"data frame 648 observations following 5 variables. year year, numeric: 87, 88, 89 loc location, 14 levels rep rep, 3 levels gen genotype, 6 levels yield yield, kg/ha","code":""},{"path":"/reference/shafii.rapeseed.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"data U.S. National Winter Rapeseed trials conducted   1986, 1987, 1988.  Trial locations included Georgia (GGA, TGA),   Idaho (ID), Kansas (KS), Mississippi (MS), Montana (MT), New York   (NY), North Carolina (NC), Oregon (), South Carolina (SC), Tennessee   (TN), Texas (TX), Virginia (VA), Washington (WA). SAS codes analysis can found   https://webpages.uidaho.edu/cals-statprog/ammi/index.html Electronic version :   https://www.uiweb.uidaho.edu/ag/statprog/ammi/yld.data Used permission Bill Price.","code":""},{"path":"/reference/shafii.rapeseed.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"Bahman Shafii William J Price, 1998.   Analysis Genotype--Environment Interaction Using   Additive Main Effects Multiplicative Interaction Model   Stability Estimates.   JABES, 3, 335--345.   https://doi.org/10.2307/1400587","code":""},{"path":"/reference/shafii.rapeseed.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"Matthew Kramer (2018).   Using Posterior Predictive Distribution Diagnostic Tool Mixed Models.   Joint Statistical Meetings 2018, Biometrics Section.   https://www.ars.usda.gov/ARSUserFiles/3122/KramerProceedingsJSM2018.pdf Reyhaneh Bijari Sigurdur Olafsson (2022).   Accounting G×E interactions plant breeding: probabilistic   approach   https://doi.org/10.21203/rs.3.rs-2052233/v1","code":""},{"path":"/reference/shafii.rapeseed.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"","code":"library(agridat) data(shafii.rapeseed) dat <- shafii.rapeseed  dat$gen <- with(dat, reorder(gen, yield, mean)) dat$loc <- with(dat, reorder(loc, yield, mean)) dat$yield <- dat$yield/1000  dat <- transform(dat, rep=factor(rep), year=as.factor(as.character(year))) dat$locyr = paste(dat$loc, dat$year, sep=\"\")  # The 'means' of reps datm <- aggregate(yield~gen+year+loc+locyr, data=dat, FUN=mean) datm <- datm[order(datm$gen),] datm$gen <- as.character(datm$gen) datm$gen <- factor(datm$gen,                        levels=c(\"Bienvenu\",\"Bridger\",\"Cascade\",                          \"Dwarf\",\"Glacier\",\"Jet\")) dat$locyr <- reorder(dat$locyr, dat$yield, mean)  libs(lattice) # This picture tells most of the story dotplot(loc~yield|gen,group=year,data=dat,         auto.key=list(columns=3),         par.settings=list(superpose.symbol=list(pch = c('7','8','9'))),         main=\"shafii.rapeseed\",ylab=\"Location\")    # AMMI biplot.  Remove gen and locyr effects. m1.lm <- lm(yield ~ gen + locyr, data=datm) datm$res <- resid(m1.lm) # Convert to a matrix libs(reshape2) dm <- melt(datm, measure.var='res', id.var=c('gen', 'locyr')) dmat <- acast(dm, gen~locyr) # AMMI biplot.  Figure 1 of Shafii (1998) biplot(prcomp(dmat), main=\"shafii.rapeseed - AMMI biplot\")"},{"path":"/reference/sharma.met.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial — sharma.met","title":"Multi-environment trial — sharma.met","text":"Multi-environment trial","code":""},{"path":"/reference/sharma.met.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial — sharma.met","text":"","code":"data(\"sharma.met\")"},{"path":"/reference/sharma.met.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial — sharma.met","text":"data frame 126 observations following 5 variables. gen genotype loc location year year rep replicate yield yield","code":""},{"path":"/reference/sharma.met.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial — sharma.met","text":"Yield 7 genotypes, 3 years, 2 locations per year, 3 replicates. Might simulated data.","code":""},{"path":"/reference/sharma.met.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial — sharma.met","text":"Jawahar R. Sharma. 1988.   Statistical Biometrical Techniques Plant Breeding.   New Age International Publishers.","code":""},{"path":"/reference/sharma.met.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial — sharma.met","text":"Andrea Onofri, 2020.   Fitting complex mixed models nlme: Example #5.   https://www.statforbiology.com/2020/stat_met_jointreg/","code":""},{"path":"/reference/sharma.met.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial — sharma.met","text":"","code":"if (FALSE) {   library(agridat)   data(sharma.met)   dat <- sharma.met   dat$env = paste0(dat$year, dat$loc) # Define environment      # Calculate environment index as loc mean - overall mean ---   libs(dplyr)   dat <- group_by(dat, env)   dat <- mutate(dat, eix = mean(yield)-mean(dat$yield))      libs(nlme)   ## Finlay-Wilkinson model plot-level model ---   m1fw <- lme(yield ~ gen/eix - 1,                random = list(env = pdIdent(~ gen - 1),                             env = pdIdent(~ rep - 1)),                data=dat)   summary(m1fw)$tTable # Match Sharma table 9.6   VarCorr(m1fw)      ## Eberhart-Russell plot-level model ---   # Use pdDiag to get variance for each genotype   m1er <- lme(yield ~ gen/eix - 1,                random = list(env = pdDiag(~ gen - 1),                             env = pdIdent(~ rep - 1)),                data=dat)   summary(m1er)$tTable # same as FW   VarCorr(m1er) # genotype variances differ       # Calculate GxE cell means and environment index ---   dat2 <- group_by(dat, gen, env)   dat2 <- summarize(dat2, yield=mean(yield))   dat2 <- group_by(dat2, env)   dat2 <- mutate(dat2, eix=mean(yield)-mean(dat2$yield))      ## Finlay-Wilkinson cell-means model ---   m2fw <- lm(yield ~ gen/eix - 1, data=dat2)   summary(m2fw)      ## Eberhart-Russell cell-means model ---   # Note, using varIdent(form=~1) is same as FW model   m2er <- gls(yield ~ gen/eix - 1,                weights=varIdent(form=~1|gen), data=dat)   summary(m2er)$tTable   sigma <- summary(m2er)$sigma   sigma2i <- (c(1, coef(m2er$modelStruct$varStruct, uncons = FALSE)) * sigma)^2   names(sigma2i)[1] <- \"A\"   sigma2i # shifted from m1er because variation from reps was swept out    }"},{"path":"/reference/shaw.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of oats in India — shaw.oats","title":"Multi-environment trial of oats in India — shaw.oats","text":"Multi-environment trial oats India, 13 genotypes, 3 year, 2 loc,   5 reps","code":""},{"path":"/reference/shaw.oats.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of oats in India — shaw.oats","text":"","code":"data(\"shaw.oats\")"},{"path":"/reference/shaw.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of oats in India — shaw.oats","text":"data frame 390 observations following 5 variables. env environment, 2 levels year year, 3 levels block block, 5 levels gen genotype variety, 13 levels yield yield oats, pounds per plot","code":""},{"path":"/reference/shaw.oats.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of oats in India — shaw.oats","text":"oat trial India 11 hybrid oats compared 2 established   high-yielding varieties, labeled L M. trail conducted 2   locations. size exact locations plots varied year   year. Pusa, crop grown without irrigation. Karnal crop   given 2-3 irrigations. Five blocks used, plot 1000 square   feet. 1932, variety L high-yielding Pusa, low-yielding   Karnal. Shaw used data illustrate ANOVA multi-environment trial.","code":""},{"path":"/reference/shaw.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of oats in India — shaw.oats","text":"F.J.F. Shaw (1936).   Handbook Statistics Use Plant Breeding Agricultural Problems.   Imperial Council Agricultural Research, India.   https://archive.org/details/HandbookStatistics1936/page/n12   P. 126","code":""},{"path":"/reference/shaw.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of oats in India — shaw.oats","text":"None","code":""},{"path":"/reference/shaw.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of oats in India — shaw.oats","text":"","code":"if (FALSE) {  library(agridat) data(shaw.oats) dat <- shaw.oats # sum(dat$yield) # 16309 matches Shaw p. 125 # sum( (dat$yield-mean(dat$yield)) ^2) # total SS matches Shaw p. 141  dat$year <- factor(dat$year) libs(lattice)  dotplot(yield ~ gen|env, data=dat, groups=year,         main=\"shaw.oats\",         par.settings=list(superpose.symbol=list(pch=c('2','3','4'))),         panel=function(x,y,...){           panel.dotplot(x,y,...)           panel.superpose(x,y,..., panel.groups=function(x,y,col.line,...) {             dd<-aggregate(y~x,data.frame(x,y),mean)             panel.xyplot(x=dd$x, y=dd$y, col=col.line, type=\"l\")           })},         auto.key=TRUE)    # Shaw & Bose meticulously calculate the ANOVA table, p. 141 m1 <- aov(yield ~ year*env*block*gen - year:env:block:gen, dat) anova(m1)  }"},{"path":"/reference/siao.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of cotton in China — siao.cotton.uniformity","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"Uniformity trials cotton China","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"","code":"data(\"siao.cotton.uniformity\")"},{"path":"/reference/siao.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"data frame 858 observations following 4 variables. row row ordinate col column ordinate yield yield, catties per mou crop crop trial number","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"1930 test blank test carried Provincial Cotton Station Yuyao,   Chekiang, China. 200 rows, 24 feet long, 1 foot apart,   planted single series. Seed sown drills, thinned 8 inches   plant--plant, 30 plants one row.    Appendix Table , Actual yield 200 rows 1930 test. 1931 test piece land, culture, fertilization previous year.   Yields much lower due  weather.   Appendix Table II, Actual yield 200 rows 1931 test. 1931 test B 24 long ridges cotton. ridge 3 rows 1.2   feet apart (rows 3.6 feet wide).   ridge cut 12 sections 16.66 feet long plants one   foot apart. Siao notes yield border plots lower   inner plots. correlation yield number   plants plot .09.     Appendix Table III, Actual yield 264 rows 1931 test (12 col, 22 row). 1932 test Another 200 rows 24 feet long planted cultural   practice 1930 test. Weather unfavorable.   Appendix Table IV, Actual yield 194 rows 1932 test. \"catty\" 1.33 pounds (Love & Reisner). \"mou\" 1/6 acre (Siao page 12). See also \"Cornell-Nanking Story\" Love & Reisner tangential   information.","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"Siao, Fu.   field plot technic study cotton.   Found :   Harry H. Love papers, 1907-1964.   Box 3, folder 34, Cotton - Plot Technic Study 1930-1932.   https://rmc.library.cornell.edu/EAD/htmldocs/RMA00890.html","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"Siao, Fu (1935).   Uniformity trials cotton,   J. Amer. Soc. Agron., 27, 974-979   https://doi.org/10.2134/agronj1935.00021962002700120004x","code":""},{"path":[]},{"path":"/reference/silva.cotton.html","id":null,"dir":"Reference","previous_headings":"","what":"Number of cotton bolls for different levels of defoliation. — silva.cotton","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Number cotton bolls, nodes, plant height, plant weight different levels defoliation.","code":""},{"path":"/reference/silva.cotton.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"","code":"data(\"silva.cotton\")"},{"path":"/reference/silva.cotton.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"data frame 125 observations following 4 variables. stage growth stage defoliation level defoliation, 0, 25, 50, 75, 100 plant plant number rep replicate reproductive number reproductive structures bolls number bolls height plant height nodes number nodes weight weight bolls","code":""},{"path":"/reference/silva.cotton.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Data come greenhouse experiment cotton plants. Completely   randomized design 5 replicates, 2 plants per pot. Artificial defoliation used levels 0, 25, 50, 75, 100 percent. Data collected per plant five growth stages: vegetative,   flower-bud, blossom, fig cotton boll. primary response variable number bolls. data   counts, underdispersed, correlated. Zeviana et al. used data compared Poisson, Gamma-count,   quasi-Poisson GLMs. Bonat & Zeviani used data fit multivariate correlated   generalized linear model. Used permission Walmes Zeviani. Electronic version :   https://www.leg.ufpr.br/~walmes/data/desfolha_algodao.txt","code":""},{"path":"/reference/silva.cotton.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Silva, Anderson Miguel da; Degrande, Paulo Eduardo; Suekane, Renato;   Fernandes, Marcos Gino; & Zeviani, Walmes Marques. (2012).   Impacto de diferentes niveis de desfolha artificial nos estadios fenologicos algodoeiro.   Revista de Ciencias Agrarias, 35(1), 163-172.   https://www.scielo.mec.pt/scielo.php?script=sci_arttext&pid=S0871-018X2012000100016&lng=pt&tlng=pt.","code":""},{"path":"/reference/silva.cotton.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Zeviani, W. M., Ribeiro, P. J., Bonat, W. H., Shimakura, S. E., Muniz, J. . (2014).   Gamma-count distribution analysis experimental underdispersed data.   Journal Applied Statistics, 41(12), 1-11.   https://doi.org/10.1080/02664763.2014.922168   Online supplement: https://leg.ufpr.br/doku.php/publications:papercompanions:zeviani-jas2014 Regression Models Count Data.   https://cursos.leg.ufpr.br/rmcd/applications.html#cotton-bolls Wagner Hugo Bonat & Walmes Marques Zeviani (2017).   Multivariate Covariance Generalized Linear Models Analysis   Experimental Data.   Short-cource : 62nd RBras 17th SEAGRO meeting/   https://github.com/leg-ufpr/mcglm4aed","code":""},{"path":"/reference/silva.cotton.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"","code":"if (FALSE) {    library(agridat) data(silva.cotton) dat <- silva.cotton dat$stage <- ordered(dat$stage,                      levels=c(\"vegetative\",\"flowerbud\",\"blossom\",\"boll\",\"bollopen\")) # make stage a numeric factors dat <- transform(dat,                  stage = factor(stage, levels = unique(stage),                                 labels = 1:nlevels(stage)))  # sum data across plants, 1 pot = 2 plants dat <- aggregate(cbind(weight,height,bolls,nodes) ~                     stage+defoliation+rep, data=dat, FUN=sum)    # all traits, plant-level data   libs(latticeExtra)   foo <- xyplot(weight + height + bolls + nodes ~ defoliation | stage,                 data = dat, outer=TRUE,                 xlab=\"Defoliation percent\", ylab=\"\", main=\"silva.cotton\",                 as.table = TRUE, jitter.x = TRUE, type = c(\"p\", \"smooth\"),                 scales = list(y = \"free\"))   combineLimits(useOuterStrips(foo))   if(0){    # poisson glm with quadratic effect for defoliation   m0 <- glm(bolls ~ 1, data=dat, family=poisson)   m1 <- glm(bolls ~ defoliation+I(defoliation^2), data=dat, family=poisson)   m2 <- glm(bolls ~ stage:defoliation+I(defoliation^2), data=dat, family=poisson)   m3 <- glm(bolls ~ stage:(defoliation+I(defoliation^2)), data=dat, family=poisson)   par(mfrow=c(2,2)); plot(m3); layout(1)   anova(m0, m1, m2, m3, test=\"Chisq\")    # predicted values   preddat <- expand.grid(stage=levels(dat$stage),                          defoliation=seq(0,100,length=20))   preddat$pred <- predict(m3, newdata=preddat, type=\"response\")    # Zeviani figure 3   libs(latticeExtra)   xyplot(bolls ~ jitter(defoliation)|stage, dat,          as.table=TRUE,          main=\"silva.cotton - observed and model predictions\",          xlab=\"Defoliation percent\",          ylab=\"Number of bolls\") +     xyplot(pred ~ defoliation|stage, data=preddat,            as.table=TRUE,            type='smooth', col=\"black\", lwd=2) }  if(0){   # ----- mcglm -----   dat <- transform(dat, deffac=factor(defoliation))    libs(car)    vars <- c(\"weight\",\"height\",\"bolls\",\"nodes\")   splom(~dat[vars], data=dat,         groups = stage,         auto.key = list(title = \"Growth stage\",                         cex.title = 1,                         columns = 3),         par.settings = list(superpose.symbol = list(pch = 4)),         as.matrix = TRUE)    splom(~dat[vars], data=dat,         groups = defoliation,         auto.key = list(title = \"Artificial defoliation\",                         cex.title = 1,                         columns = 3),         as.matrix = TRUE)    # multivariate linear model.   m1 <- lm(cbind(weight, height, bolls, nodes) ~ stage * deffac,            data = dat)   anova(m1)    summary.aov(m1)    r0 <- residuals(m1)    # Checking the models assumptions on the residuals.   car::scatterplotMatrix(r0,                          gap = 0, smooth = FALSE, reg.line = FALSE, ellipse = TRUE,                          diagonal = \"qqplot\")    } }"},{"path":"/reference/sinclair.clover.html","id":null,"dir":"Reference","previous_headings":"","what":"Clover yields in a factorial fertilizer experiment — sinclair.clover","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"Clover yields factorial fertilizer experiment","code":""},{"path":"/reference/sinclair.clover.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"","code":"data(\"sinclair.clover\")"},{"path":"/reference/sinclair.clover.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"data frame 25 observations following 3 variables. yield yield t/ha P phosphorous fertilizer kg/ha S sulfur fertilizer kg/ha","code":""},{"path":"/reference/sinclair.clover.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"phosphorous sulfur factorial experiment Dipton Southland,   New Zealand.  3 reps.  Plots harvested repeatedly   Dec 1992 Mar 1994.  Yields reported total dry matter across   cuttings.","code":""},{"path":"/reference/sinclair.clover.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"Sinclair AG, Risk WH, Smith LC, Morrison JD & Dodds KG (1994)   Sulphur phosphorus balanced pasture nutrition.   Proc N Z Grass Assoc, 56, 13-16.","code":""},{"path":"/reference/sinclair.clover.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"Dodds, KG Sinclair, AG Morrison, JD. (1995).   bivariate response surface growth data.   Fertilizer research, 45, 117-122.   https://doi.org/10.1007/BF00790661","code":""},{"path":"/reference/sinclair.clover.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"","code":"if (FALSE) {  library(agridat)  data(sinclair.clover) dat <- sinclair.clover  libs(lattice) xyplot(yield~P|factor(S), dat, layout=c(5,1),        main=\"sinclair.clover - Yield by sulfur levels\",        xlab=\"Phosphorous\")  # Dodds fits a two-dimensional Mitscherlich-like model: # z = a*(1+b*{(s+t*x)/(x+1)}^y) * (1+d*{(th+r*y)/(y+1)}^x)  # First, re-scale the problem to a more stable part of the parameter space dat <- transform(dat, x=P/10, y=S/10)  # Response value for (x=0, y=maximal), (x=maximal, y=0), (x=max, y=max) z0m <- 5 zm0 <- 5 zmm <- 10.5 # The parameters are somewhat sensitive to starting values. # I had to try a couple different initial values to match the paper by Dodds m1 <- nls(yield ~ alpha*(1 + beta*{(sig+tau*x)/(x+1)}^y) * (1 + del*{(th+rho*y)/(y+1)}^x),           data=dat, # trace=TRUE,           start=list(alpha=zmm, beta=(zm0/zmm)-1, del=(z0m/zmm)-1,                      sig=.51, tau=.6, th=.5, rho=.7)) summary(m1) # Match Dodds Table 2 ## Parameters: ##       Estimate Std. Error t value Pr(>|t|) ## alpha 11.15148    0.66484  16.773 1.96e-12 *** ## beta  -0.61223    0.03759 -16.286 3.23e-12 *** ## del   -0.48781    0.04046 -12.057 4.68e-10 *** ## sig    0.26783    0.16985   1.577  0.13224 ## tau    0.68030    0.06333  10.741 2.94e-09 *** ## th     0.59656    0.16716   3.569  0.00219 ** ## rho    0.83273    0.06204  13.421 8.16e-11 *** ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 ## Residual standard error: 0.5298 on 18 degrees of freedom  pred <- expand.grid(x=0:17, y=0:9) pred$z <- predict(m1, pred)  # 3D plot of data with fitted surface.  Matches Dodds figure 2. libs(rgl) bg3d(color = \"white\") clear3d() spheres3d(dat$x, dat$y, dat$yield,          radius=.2, col = rep(\"navy\", nrow(dat))) surface3d(seq(0, 17, by = 1), seq(0, 9, by = 1), pred$z,           alpha=0.9, col=\"wheat\",           front=\"fill\", back=\"fill\") axes3d() title3d(\"sinclair.clover - yield\",\"\", xlab=\"Phosphorous/10\",         ylab=\"Sulfur/10\", zlab=\"\", line=3, cex=1.5) view3d(userMatrix=matrix(c(.7,.2,-.7,0, -.7,.2,-.6,0, 0,.9,.3,0, 0,0,0,1),ncol=4))   # snapshot3d(file, \"png\")  close3d() }"},{"path":"/reference/smith.beans.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"Uniformity trials beans California, 1954-1955, 2 species 2 years","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"","code":"data(\"smith.beans.uniformity\")"},{"path":"/reference/smith.beans.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"data frame 912 observations following 4 variables. expt experiment row row col column yield yield, kg","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"Trials conducted California. 1955 plots twice wide twice long 1954.    Red Kidney bush variety bean, Standard Pink viny variety. Smith randomly assigned ,B,C,D plots used 'varieties'   calculating ANOVA tables.  Plots combined side--side   end--end make larger plots. Decreasing LSDs observed   increases plot sizes.  LSDs seldom 200,   considered noticeable difference farmers. four datasets: ----- 1954 Experiment 1: Red Kidney. 1954 Experiment 2: Standard Pink Field width: 18 plots * 30 inches = 45 ft Field length: 12 plots * 15 ft = 180 ft ----- 1955 Experiment 3: Red Kidney. 1955 Experiment 4: Standard Pink Field width: 16 plots * 2 rows * 30 = 80 ft Field length: 15 plots * 30 ft = 450 ft","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"Francis L. Smith, 1958.   Effects plot size, plot shape, number replications   efficacy bean yield trials.   Hilgardia, 28, 43-63.   https://doi.org/10.3733/hilg.v28n02p043","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"None.","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(smith.beans.uniformity)   dat1 <- subset(smith.beans.uniformity, expt==\"E1\")   dat2 <- subset(smith.beans.uniformity, expt==\"E2\")   dat3 <- subset(smith.beans.uniformity, expt==\"E3\")   dat4 <- subset(smith.beans.uniformity, expt==\"E4\")    cv <- function(x) { sd(x)/mean(x) }   cv(dat1$yield)   cv(dat2$yield) # Does not match Smith. Checked all values by hand.   cv(dat3$yield)   cv(dat4$yield)    libs(\"desplot\")   desplot(dat1, yield ~ col*row,           aspect=180/45, flip=TRUE, # true aspect           main=\"smith.beans.uniformity, expt 1 (true aspect)\")    desplot(dat2, yield ~ col*row,           aspect=180/45, flip=TRUE, # true aspect           main=\"smith.beans.uniformity, expt 2 (true aspect)\")    desplot(dat3, yield ~ col*row,           aspect=450/80, flip=TRUE, # true aspect           main=\"smith.beans.uniformity, expt 3 (true aspect)\")    desplot(dat4, yield ~ col*row,           aspect=450/80, flip=TRUE, # true aspect           main=\"smith.beans.uniformity expt 4, (true aspect)\")    }"},{"path":"/reference/smith.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"Uniformity trial corn, 3 years ground, 1895-1897, Illinois.","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"data frame 360 observations following 5 variables. row row col column plot plot number, consistent across years year year. Last two digits 1895, 1896, 1897 yield yield, bushels / acre","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"Data come Illinois Experiment Station. data values Smith (1910) field map Harris (1920).   plot 1/10 acre, dimensions given. Note   1/10 acre also area square 1 chain (66 feet) side. following text abridged Smith (1910). much variability may reasonably expect land   apparently uniform? data among records soil plots   Illinois Experiment station furnish interesting material study   connection. field lain sixteen years pasture broken 1895   laid plots subsequently used soil   experiments. land slightly rolling otherwise quite uniform   appearance. series considered   connection 120 one-tenth acre plots. plots planted   corn three consecutive years without soil treatment,   records offer rather exceptional opportunity study   kind. study data reveals striking variations.   noticed first place tremendous difference   production different years. first year, 1895,   extremely unfavorable one corn yields exceptionally   low. weather records show season unusually   dry, also cool early part. following year   exceptionally favorable corn season, yields run unusually   high. third year also good one, yields perhaps   somewhat normal locality. observed certain plots appear   abnormal. Thus plots 117, 118, 119, 120 give abnormally high   yield first season abnormally low one two   following years. accounted topography   land. plots lie low spot favorable dry   year 1895, unfavorable 1896 1897. reason   four plots rejected consideration study,   also plots 616, 617, 618, 619, 620. leaves 111 plots   whose variations apparently unaccounted furnish   data following results taken. noticeable variability measured standard   deviation becomes less succeeding year. suggests   question whether continued cropping might tend induce   uniformity. records plots continued   corn three years longer, however, support   conclusion. seems reasonable expect greater variability seasons   unfavorable production, 1895, much may   depend upon certain critical factors production coming play   suggestion may explanation high standard   deviation first year. Results extending longer series   years extremely interesting connection. consider total range variation single year,   find differences follows: Plots lying adjoining shown   following maximum variations: 18 bushels 1895; 11 bushels 1896;   8 bushels 1897. results give us conception unaccountable plot   variations deal field tests. possibility   remains still closer study might detect abnormal factors   play account variations certain cases,   study certainly suggests importance conservatism arriving   conclusions based upon plot tests. particular value writer derived study   strengthening conviction dependence   placed upon variety tests field experiments records   involving average liberal numbers extending long   periods time.","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"Smith, L.H. 1910.   Plot arrangement variety experiments corn.   Agronomy Journal, 1, 84--89. Table 1.   https://books.google.com/books?id=mQT0AAAAMAAJ&pg=PA84 Harris, J.. 1920.   Practical universality field heterogeneity factor   influencing plot yields.   Journal Agricultural Research, 19, 279--314. Page 296-297.   https://books.google.com/books?id=jyEXAAAAYAAJ&pg=PA279","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(smith.corn.uniformity)   dat <- smith.corn.uniformity    dat = transform(dat, year=factor(year))   libs(desplot)   desplot(dat, yield~col*row|year,           layout=c(2,2), aspect=1,           main=\"smith.corn.uniformity: yield across years 1895-1987\")    ## # Outliers are obvious   ## libs(lattice)   ## xyplot(yield~row|factor(col), dat, groups=year,   ##        auto.key=list(columns=3), main=\"smith.corn.uniformity\")    libs(rgl)   # A few odd pairs of outliers in column 6   # black/gray dots very close to each other   plot3d(dat$col, dat$row, dat$yield, col=dat$year,          xlab=\"col\",ylab=\"row\",zlab=\"yield\")   close3d()    }"},{"path":"/reference/smith.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — smith.wheat.uniformity","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"Uniformity trial wheat Australia.","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"","code":"data(\"smith.wheat.uniformity\")"},{"path":"/reference/smith.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"data frame 1080 observations following 4 variables. row row ordinate col column ordinate yield grain yield per plot, grams ears number ears per plot","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"Experiment grown Canberra, Australia, 1934. data yield grain per plot number \"ears\".   plot 1 foot long 0.5 foot. Field width: 36 columns x 1 foot = 36 feet. Field length: 30 rows x 0.5 foot = 15 feet. Notes: 2 copies yield data Rothamsted library.   Let Copy one dark, hand-drawn grid lines, Copy B   one without hand-drawn grid lines. copies hand-written,   likely copied original data. row 4 (top) column 34: Copy yield 164 Copy B   yield 154. value 154 appears correct, since leads   row column totals shown Copy Copy B. row 20, column 28, Copy Copy B show yield 283.   appears copy error. replaced value 283 203,   row column totals match values Copy Copy B,   also variance data matches value Smith (1938),   2201 page 7. documents Rothamsted claim grain yield shown   \"Yields grain decigrams per foot length\".  However, believe   actual unit weight grams. Note yield values   high-yielding parts field close 200 g per plot,   plot 0.5 sq feet.  Multiply 8 get 1600 g per 4 sq   feet. Smith's paper, fertility contour map figure 1 shows   high-yielding part field yield close   \"16 d.kg per 4 sq ft\", 16 d.kg = 16 kg = 1600 g. data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 7.","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"H. Fairfield Smith (1938).   empirical law describing heterogeneity yields   agricultural crops.   Journal Agricultural Science, volume 28, Issue 1, January   1938, pp. 1 - 23.    https://doi.org/10.1017/S0021859600050516 Peter McCullagh & David Clifford. (2006).   Evidence conformal invariance crop yields.   Proc. R. Soc. (2006) 462, 2119–2143   http://www.stat.uchicago.edu/~pmcc/reml/   https://doi.org/:10.1098/rspa.2006.1667","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"","code":"if (FALSE) {      library(agridat)   data(smith.wheat.uniformity)   dat <- smith.wheat.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"smith.wheat.uniformity\",           flip=TRUE, aspect=15/30)    xyplot(yield ~ ears, data=dat)    libs(agricolae,reshape2)    # Compare to Smith Fig. 2   m1 <- index.smith(acast(dat, row~col, value.var='yield'),                     main=\"smith.wheat.uniformity\",                     col=\"red\")$uni   m1 # Compare to Smith table I    }"},{"path":"/reference/snedecor.asparagus.html","id":null,"dir":"Reference","previous_headings":"","what":"Asparagus yields for different cutting treatments — snedecor.asparagus","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Asparagus yields different cutting treatments, 4 years.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"data frame 64 observations following 4 variables. block block factor, 4 levels year year, numeric trt treatment factor final cutting date yield yield, ounces","code":""},{"path":"/reference/snedecor.asparagus.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Planted 1927.  Cutting began 1929.  Yield weight   asparagus cuttings Jun 1 plot.  plots received continued   cuttings Jun 15, Jul 1, Jul 15. past, repeated-measurement experiments like sometimes   analyzed split-plot experiment.  violates   indpendence assumptions.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Snedecor Cochran, 1989. Statistical Methods.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Mick O'Neill, 2010.   Guide Linear Mixed Models Experimental Design Context.   Statistical Advisory & Training Service Pty Ltd.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"","code":"if (FALSE) {      library(agridat)   data(snedecor.asparagus)   dat <- snedecor.asparagus    dat <- transform(dat, year=factor(year))   dat$trt <- factor(dat$trt,                     levels=c(\"Jun-01\", \"Jun-15\", \"Jul-01\", \"Jul-15\"))    # Continued cutting reduces plant vigor and yield   libs(lattice)   dotplot(yield ~ trt|year, data=dat,           xlab=\"Cutting treatment\", main=\"snedecor.asparagus\")    # Split-plot   if(0){     libs(lme4)     m1 <- lmer(yield ~ trt + year + trt:year +                  (1|block) + (1|block:trt), data=dat)   }    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)      # Split-plot with asreml     m2 <- asreml(yield ~ trt + year + trt:year, data=dat,                  random = ~ block + block:trt)     lucid::vc(m2)     ##    effect component std.error z.ratio bound      ##     block     354.3     405      0.87     P 0.1     ## block:trt     462.8     256.9    1.8      P 0       ##   units!R     404.7      82.6    4.9      P 0            ## # Antedependence with asreml.  See O'Neill (2010).     dat <- dat[order(dat$block, dat$trt), ]     m3 <- asreml(yield ~ year * trt, data=dat,                  random = ~ block,                  residual = ~ block:trt:ante(year,1),                  max=50)     m3 <- update(m3)     m3 <- update(m3)      ## # Extract the covariance matrix for years and convert to correlation     ## covmat <- diag(4)     ## covmat[upper.tri(covmat,diag=TRUE)] <- m3$R.param$`block:trt:year`$year$initial     ## covmat[lower.tri(covmat)] <- t(covmat)[lower.tri(covmat)]     ## round(cov2cor(covmat),2) # correlation among the 4 years     ## #      [,1] [,2] [,3] [,4]     ## # [1,] 1.00 0.45 0.39 0.31     ## # [2,] 0.45 1.00 0.86 0.69     ## # [3,] 0.39 0.86 1.00 0.80     ## # [4,] 0.31 0.69 0.80 1.00          ## # We can also build the covariance Sigma by hand from the estimated     ## # variance components via: Sigma^-1 = U D^-1 U'     ## vv <- vc(m3)     ## print(vv)     ## ##            effect component std.error z.ratio constr     ## ##   block!block.var  86.56    156.9        0.55    pos     ## ##        R!variance   1              NA      NA    fix     ## ##  R!year.1930:1930   0.00233   0.00106    2.2   uncon     ## ##  R!year.1931:1930  -0.7169    0.4528    -1.6   uncon     ## ##  R!year.1931:1931   0.00116   0.00048    2.4   uncon     ## ##  R!year.1932:1931  -1.139     0.1962    -5.8   uncon     ## ##  R!year.1932:1932   0.00208   0.00085    2.4   uncon     ## ##  R!year.1933:1932  -0.6782    0.1555    -4.4   uncon     ## ##  R!year.1933:1933   0.00201   0.00083    2.4   uncon          ## U <- diag(4)     ## U[1,2] <- vv[4,2] ; U[2,3] <- vv[6,2] ; U[3,4] <- vv[8,2]     ## Dinv <- diag(c(vv[3,2], vv[5,2], vv[7,2], vv[9,2]))     ## # solve(U      ## solve(crossprod(t(U), tcrossprod(Dinv, U)) )     ## ##          [,1]      [,2]      [,3]      [,4]     ## ## [1,] 428.4310  307.1478  349.8152  237.2453     ## ## [2,] 307.1478 1083.9717 1234.5516  837.2751     ## ## [3,] 349.8152 1234.5516 1886.5150 1279.4378     ## ## [4,] 237.2453  837.2751 1279.4378 1364.8446   }    }"},{"path":"/reference/snijders.fusarium.html","id":null,"dir":"Reference","previous_headings":"","what":"Fusarium infection in wheat varieties — snijders.fusarium","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"Infection wheat different strains Fusarium.","code":""},{"path":"/reference/snijders.fusarium.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"data frame 204 observations following 4 variables. gen wheat genotype strain fusarium strain year year y percent infected","code":""},{"path":"/reference/snijders.fusarium.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"data percent leaf area affected Fusarium head blight,   averaged 4-5 reps, 17 winter wheat genotypes. Van Eeuwijk fit generalized ammi-2 model data.    generalized model sense link function used,   non-linear AMMI model main effects variety   year-strain, additional multiplicative effects   interactions. Note, value strain F348 1988, gen SVP75059-32   28.3 (shown VanEeuwijk 1995) 38.3 (shown Snijders   1991). Used permission Fred van Eeuwijk.","code":""},{"path":"/reference/snijders.fusarium.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"Snijders, CHA Van Eeuwijk, FA. 1991.   Genotype x strain interactions resistance Fusarium head blight   caused Fusarium culmorum winter wheat.   Theoretical Applied Genetics, 81, 239--244. Table 1.   https://doi.org/10.1007/BF00215729","code":""},{"path":"/reference/snijders.fusarium.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"Fred van Eeuwijk. 1995.   Multiplicative interaction generalized linear models.   Biometrics, 51, 1017-1032.   https://doi.org/10.2307/2533001","code":""},{"path":"/reference/snijders.fusarium.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"","code":"if (FALSE) {  library(agridat)  data(snijders.fusarium) dat <- snijders.fusarium  aggregate(y ~ strain + year, dat, FUN=mean) # Match means in Snijders table 1  dat <- transform(dat, y=y/100, year=factor(year), yrstr=factor(paste0(year,\"-\",strain)))  # Strain F329 shows little variation across years. F39 shows a lot. libs(lattice) dotplot(gen~y|strain, data=dat, group=year,         main=\"snijders.fusarium : infection by strain\",         xlab=\"Fraction infected\", ylab=\"variety\",         auto.key=list(columns=3))  # Logit transform dat <- transform(dat, logit=log(y/(1-y))) m1 <- aov(logit ~ yrstr + gen, data=dat) # Match SS in VanEeuwijk table 4 anova(m1)  # Match SS in VanEeuwijk table 4 m2 <- aov(logit ~ year*strain + gen + gen:year + gen:strain, data=dat) anova(m2) # Match to VanEeuwijk table 5  # GLM on untransformed data using logit link, variance mu^2(1-mu)^2 libs(gnm) # for 'wedderburn' family m2 <- glm(y ~ yrstr + gen, data=dat, family=\"wedderburn\") anova(m2) # Main effects match VanEeuwijk table 6  # Generalized AMMI-2 model. Matches VanEeuwijk table 6 bilin2 <- gnm(y ~ yrstr + gen + instances(Mult(yrstr, gen), 2),               data=dat, family = wedderburn) # plot(bilin2,1) # Resid vs fitted plot matches VanEeuwijk figure 3c ## anova(bilin2) ##                            Df Deviance Resid. Df Resid. Dev ## NULL                                         203     369.44 ## yrstr                      11  150.847       192     218.60 ## gen                        16  145.266       176      73.33 ## Mult(yrstr, gen, inst = 1) 26   26.128       150      47.20 ## Mult(yrstr, gen, inst = 2) 24   19.485       126      27.72  # Manually extract coordinates for biplot cof <- coef(bilin2) y1 <- cof[29:40] g1 <- cof[41:57] y2 <- cof[58:69] g2 <- cof[70:86] g12 <- cbind(g1,g2) rownames(g12) <- substring(rownames(g12), 29) y12 <- cbind(y1,y2) rownames(y12) <- substring(rownames(y12), 31) g12[,1] <- -1 * g12[,1] y12[,1] <- -1 * y12[,1] # GAMMI biplot.  Inner-products of points projected onto # arrows match VanEeuwijk figure 4.  Slight rotation of graph is ignorable. biplot(y12, g12, cex=.75, main=\"snijders.fusarium\") # Arrows to genotypes.  }"},{"path":"/reference/stephens.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"Uniformity trial sorghum silage Chillicothe, Texas, 1915.","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"data frame 2000 observations following 3 variables. row row col column / rod yield yield, ounces","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"Grown near Chillicothe, TX 1915.  Rows 40 inches apart.   row harvested 1-rod (16.5 ft) lengths.   East side higher yielding west side.   Yields weight (ounces) green forage rod-row.   Total area harvested: 100*40/12 = 333.33 feet 20*16.5=330 feet. Field width: 20 plots * 16.5 ft (1 rod) = 330 feet. Field length: 100 plots * 40 = 333 feet","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"Stephens, Joseph C. 1928.   Experimental methods probable error field experiments sorghum.   Journal Agricultural Research, 37, 629--646.   https://naldc.nal.usda.gov/catalog/IND43967516","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"","code":"if (FALSE) {  library(agridat)      data(stephens.sorghum.uniformity)   dat <- stephens.sorghum.uniformity    dat <- subset(dat, row>2 & row<99) # omit outer two rows   # mean(dat$yield) # 180.27   # range(dat$yield) # 75,302 matches Stephens      # densityplot(~dat$yield) # Stephens figure 3      # Aggregate 4 side-by-side rows.   d4 <- dat   d4$row2 <- ceiling((d4$row-2)/4)   d4 <- aggregate(yield ~ row2+col, data=d4, FUN=sum)   d4$row2 <- 25-d4$row2 # flip horizontally      libs(desplot)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   desplot(d4, yield ~ row2*col,           aspect=333/330, flip=TRUE, # true aspect           main=\"stephens.sorghum.uniformity\",           col.regions=grays(3),           at=c(500,680,780,1000))   # Similar to Stephens Figure 7.  North at top.  East at right.    }"},{"path":"/reference/steptoe.morex.pheno.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"Phenotypic genotypic data barley population Steptoe x     Morex.  150 doubled haploid crosses, evaluated 223     markers.  Phenotypic data wascollected 8 traits 16 environments.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"","code":"data(\"steptoe.morex.pheno\")"},{"path":"/reference/steptoe.morex.pheno.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"steptoe.morex.pheno data.frame phenotypic data   2432 observations 10 variables: gen genotype factor parents Steptoe Morex,       150 crosses SM1, SM2, ..., SM200. 200 numbers used. env environment, 16 levels amylase alpha amylase (20 Deg Units) diapow diastatic power (degree units) hddate heading date (julian days) lodging lodging (percent) malt malt extract (percent) height plant height (centimeters) protein grain protein (percent) yield grain yield (Mt/Ha) steptoe.morex.geno cross object   qtl package genotypic data 223   markers 150 crosses Steptoe x Morex.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"described Hayes et al (1993), population 150 barley doubled   haploid (DH) lines developed Oregon State University Barley   Breeding Program North American Barley Genome Mapping   Project. parentage population Steptoe / Morex. Steptoe dominant feed barley northwestern U.S. Morex spring U.S. malting quality standard. Seed single head parent used create F1,   set 150 lines developed. Phenotypic values parents Steptoe Morex :   https://wheat.pw.usda.gov/ggpages/SxM/parental_values.html 16 locations, average across locations column 17.    traits collected every location.  location, 150 lines   included block 1, random subset 50 lines used block 2. traits :   Alpha Amylase (20 Deg Units),   Diastatic Power (Deg Units),   Heading Date (Julian Days),   Lodging (percent),   Malt Extract (percent),   Grain Protein (percent),   Grain Yield (Mt/Ha). Phenotypic values 150 lines F1 population :   https://wheat.pw.usda.gov/ggpages/SxM/phenotypes.html trait different file, block numbers   represents one location. 223-markers Steptoe/Morex base map :   https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.map data markers 150 lines   https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.mrk hand-assembled (e.g. marker distances cumulated   marker positions) .csv file imported   R using qtl::read.cross.  class manually changed   c('bc','cross') c('dh','cross'). marker data coded = Steptoe, B = Morex, - = missing. pedigrees 150 lines found :   https://wheat.pw.usda.gov/ggpages/SxM/pedigrees.html Data provided United States Department Agriculture.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"Steptoe x Morex Barley Mapping Population.   Map: Version 2, August 1, 1995   https://wheat.pw.usda.gov/ggpages/SxM.  Accessed Jan 2015.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"P.M. Hayes, B.H. Liu, S.J. Knapp, F. Chen, B. Jones, T. Blake,   J. Franckowiak, D. Rasmusson, M. Sorrells, S.E. Ullrich, others. 1993.   Quantitative trait locus effects environmental interaction sample   North American barley germplasm.   Theoretical Applied Genetics, 87, 392--401.   https://doi.org/10.1007/BF01184929 Ignacio Romagosa, Steven E. Ullrich, Feng Han, Patrick M. Hayes. 1996.   Use additive main effects multiplicative interaction model   QTL mapping adaptation barley.   Theor Appl Genet, 93, 30-37.   https://doi.org/10.1007/BF00225723 Piepho, Hans-Peter. 2000.   mixed-model approach mapping quantitative trait loci barley   basis multiple environment data.   Genetics, 156, 2043-2050. M. Malosetti, J. Voltas, . Romagosa, S.E. Ullrich, F.. van Eeuwijk. (2004).   Mixed models including environmental covariables studying QTL   environment interaction.   Euphytica, 137, 139-145.   https://doi.org/10.1023/B:EUPH.0000040511.4638","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"","code":"if (FALSE) {      library(agridat)   data(steptoe.morex.pheno)   dat <- steptoe.morex.pheno    # Visualize GxE of traits   libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   levelplot(amylase~env*gen, data=dat, col.regions=redblue,             scales=list(x=list(rot=90)), main=\"amylase\")   ## levelplot(diapow~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"diapow\")   ## levelplot(hddate~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"hddate\")   ## levelplot(lodging~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"lodging\")   ## levelplot(malt~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"malt\")   ## levelplot(height~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"height\")   ## levelplot(protein~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"protein\")   ## levelplot(yield~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"yield\")     # Calculate avg yield for each loc as in Romagosa 1996, table 3   # t(t(round(tapply(dat$yield, dat$env, FUN=mean),2)))   # SKo92,SKg92 means in table 3 are switched.  Who is right, him or me?    # Draw marker map   libs(qtl)   data(steptoe.morex.geno)   datg <- steptoe.morex.geno   qtl::plot.map(datg, main=\"steptoe.morex.geno\")   qtl::plotMissing(datg)         # This is a very rudimentary example.   # The 'wgaim' function works interactively, but fails during   # devtools::check().   if(0 & require(\"asreml\", quietly=TRUE)){     libs(asreml)      # Fit a simple multi-environment mixed model     m1 <- asreml(yield ~ env, data=dat, random=~gen)        libs(wgaim)     wgaim::linkMap(datg)     # Create an interval object for wgaim     dati <- wgaim::cross2int(datg, id=\"gen\")          # Whole genome qtl     q1 <- wgaim::wgaim(m1, intervalObj=dati,                        merge.by=\"gen\", na.action=na.method(x=\"include\"))     #wgaim::linkMap(q1, dati) # Visualize     wgaim::outStat(q1, dati) # outlier statistic     summary(q1, dati)  # Table of important intervals     # Chrom Left Marker dist(cM) Right Marker dist(cM)   Size Pvalue      #     3      ABG399     52.6       BCD828     56.1  0.254  0.000  45.0     #     5      MWG912      148      ABG387A    151.2  0.092  0.001   5.9     #     6     ABC169B     64.8       CDO497     67.5 -0.089  0.001   5.6   }    }"},{"path":"/reference/stickler.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — stickler.sorghum.uniformity","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"Uniformity trial sorghum Manhattan, Kansas, 1958-1959.","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"","code":"data(\"stickler.sorghum.uniformity\")"},{"path":"/reference/stickler.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"data frame 1600 observations following 4 variables. expt experiment row row col col yield yield, pounds","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"Four sorghum experiments Agronomy Farm Manhattan,   Kansas. Experiments E1,E2 grown 1958. Expts E3,E5 grown 1959. Experiment E1. Field width = 20 units * 14 inches = 23.3 ft. Field length = 20 units * 10 feet = 200 feet. Experiment E2-E3. Field width = 20 units * 40 inches = 73 feet Field length = 20 units * 5 ft = 100 feet.","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"F. C. Stickler (1960).   Estimates Optimum Plot Size Grain Sorghum Uniformity Trial Data.   Technical bulletin, Kansas Agricultural Experiment Station, page 17-20.   https://babel.hathitrust.org/cgi/pt?id=uiug.30112019584322&view=1up&seq=21","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"None.","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(stickler.sorghum.uniformity)   dat <- stickler.sorghum.uniformity      dat1 <- subset(dat, expt==\"E1\")   dat2 <- subset(dat, expt!=\"E1\")      libs(desplot)   desplot(dat, yield ~ col*row|expt,           subset=expt==\"E1\",           #cex=1,text=yield, shorten=\"none\",           xlab=\"row\",ylab=\"range\",           flip=TRUE, tick=TRUE, aspect=(20*10)/(20*14/12), # true aspect           main=\"stickler.sorghum.uniformity: expt E1\")    desplot(dat, yield ~ col*row|expt,           subset=expt!=\"E1\",           xlab=\"row\",ylab=\"range\",           flip=TRUE, tick=TRUE, aspect=(20*5)/(20*44/12), # true aspect           main=\"stickler.sorghum.uniformity: expt E2,E3,E4\")    # Stickler, p. 10-11 has   #    E1    E2    E3    E4   # 34.81 11.53 11.97 14.10    cv <- function(x) 100*sd(x)/mean(x)   tapply(dat$yield, dat$expt, cv)   # 35.74653 11.55062 11.97011 14.11389    }"},{"path":"/reference/stirret.borers.html","id":null,"dir":"Reference","previous_headings":"","what":"Corn borer control by application of fungal spores. — stirret.borers","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"Corn borer control application fungal spores.","code":""},{"path":"/reference/stirret.borers.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"data frame 60 observations following 4 variables. block block, 15 levels trt treatment, 4 levels count1 count borers August 18 count2 count borers October 19","code":""},{"path":"/reference/stirret.borers.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"Experiment conducted 1935, Ottawa.  European corn borer infestation   established application egg masses plants.   Treatments applied July 8 July 19 two levels, 0 40   grams per acre.  number borers per plot counted   Aug 18 Oct 19.","code":""},{"path":"/reference/stirret.borers.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"Stirrett, George M Beall, Geoffrey Timonin, M. (1937).   field experiment control European corn borer, Pyrausta   nubilalis Hubn, Beauveria bassiana Vuill.   Sci. Agric., 17, 587--591.  Table 2.","code":""},{"path":"/reference/stirret.borers.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"","code":"if (FALSE) {      library(agridat)   data(stirret.borers)   dat <- stirret.borers    libs(lattice)   xyplot(count2~count1|trt,dat,          main=\"stirret.borers - by treatment\",          xlab=\"Early count of borers\", ylab=\"Late count\")      # Even though the data are counts, Normal distribution seems okay   # qqmath(~count1|trt, dat, main=\"stirret.borers\")      m1 <- lm(count1 ~ -1 + trt + block, dat)   anova(m1)   # predicted means = main effect + average of 15 block effects   # note block 1 effect is 0   # coef(m1)[1:4] + sum(coef(m1)[-c(1:4)])/15   ##  trtBoth trtEarly  trtLate  trtNone    ## 47.86667 62.93333 40.93333 61.13333     }"},{"path":"/reference/streibig.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Competition experiment between barley and sinapis. — streibig.competition","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"Competition experiment barley sinapis, different   planting rates.","code":""},{"path":"/reference/streibig.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"data frame 135 observations following 8 variables. pot pot number bseeds barley seeds sown sseeds sinapis seeds sown block block bfwt barley fresh weight sfwt sinapis fresh weight bdwt barley dry weight sdwt sinapis dry weight","code":""},{"path":"/reference/streibig.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"source data (McCullagh) also contains count plants   harvested (included ) sometimes greater   number seeds planted. Used permission Jens Streibig.","code":""},{"path":"/reference/streibig.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"Peter McCullagh, John . Nelder.   Generalized Linear Models, page 318-320.","code":""},{"path":"/reference/streibig.competition.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"Oliver Schabenberger Francis J Pierce. 2002.   Contemporary Statistical Models Plant Soil Sciences.   CRC Press.  Page 370-375.","code":""},{"path":"/reference/streibig.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"","code":"if (FALSE) {    library(agridat)  data(streibig.competition) dat <- streibig.competition  # See Schaberger and Pierce, pages 370+ # Consider only the mono-species barley data (no competition from sinapis) d1 <- subset(dat, sseeds<1) d1 <- transform(d1, x=bseeds, y=bdwt, block=factor(block))  # Inverse yield looks like it will be a good fit for Gamma's inverse link libs(lattice) xyplot(1/y~x, data=d1, group=block, auto.key=list(columns=3),        xlab=\"Seeding rate\", ylab=\"Inverse yield of barley dry weight\",        main=\"streibig.competition\")  # linear predictor is quadratic, with separate intercept and slope per block m1 <- glm(y ~ block + block:x + x+I(x^2), data=d1,           family=Gamma(link=\"inverse\")) # Predict and plot newdf <- expand.grid(x=seq(0,120,length=50), block=factor(c('B1','B2','B3')) ) newdf$pred <- predict(m1, new=newdf, type='response') plot(y~x, data=d1, col=block, main=\"streibig.competition - by block\",      xlab=\"Barley seeds\", ylab=\"Barley dry weight\") for(bb in 1:3){   newbb <- subset(newdf, block==c('B1','B2','B3')[bb])   lines(pred~x, data=newbb, col=bb) }  }"},{"path":"/reference/strickland.apple.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial in apple — strickland.apple.uniformity","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"Uniformity trial apple Australia","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"","code":"data(\"strickland.apple.uniformity\")"},{"path":"/reference/strickland.apple.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"data frame 198 observations following 3 variables. row row col column yield yield per tree, pounds","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"recently re-worked trees removed data. distance trees uncertain, likely range 20-30   feet.","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial in apple — strickland.apple.uniformity","text":". G. Strickland (1935).   Error horticultural experiments.   Journal Agriculture, Victoria, 33, 408-416.   https://handle.slv.vic.gov.au/10381/386642","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"None","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(strickland.apple.uniformity)   dat <- strickland.apple.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.apple.uniformity\",           flip=TRUE, aspect=(18/11)) }"},{"path":"/reference/strickland.grape.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of grape — strickland.grape.uniformity","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"Uniformity trial grape Australia","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"","code":"data(\"strickland.grape.uniformity\")"},{"path":"/reference/strickland.grape.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"data frame 155 observations following 3 variables. row row col column yield yield per vine, pounds","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"Yields individual grape vines, planted 8 feet apart rows 10 feet   apart.   Grown Rutherglen, North-East Victoria, Australia, 1930. Certain sections omitted missing vines.","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of grape — strickland.grape.uniformity","text":". G. Strickland (1932).   vine uniformity trial.   Journal Agriculture, Victoria, 30, 584-593.   https://handle.slv.vic.gov.au/10381/386462","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"None","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"","code":"if (FALSE) {  library(agridat)  data(strickland.grape.uniformity) dat <- strickland.grape.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.grape.uniformity\",           flip=TRUE, aspect=(31*8)/(5*10) )      # CV 43.4   sd(dat$yield, na.rm=TRUE)/mean(dat$yield, na.rm=TRUE)      # anova like Strickland, appendix 1   anova(aov(yield ~ factor(row) + factor(col), data=dat))    # numbers ending in .5 much more common than .0   # table(substring(format(na.omit(dat$yield)),4,4))   #  0   5    # 25 100   }"},{"path":"/reference/strickland.peach.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of peach — strickland.peach.uniformity","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"Uniformity trial peach trees Australia.","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"","code":"data(\"strickland.peach.uniformity\")"},{"path":"/reference/strickland.peach.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"data frame 144 observations following 3 variables. row row col column yield yield, pounds per tree","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"Yields weight peaches per individual tree pounds.","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of peach — strickland.peach.uniformity","text":". G. Strickland (1935).   Error horticultural experiments.   Journal Agriculture, Victoria, 33, 408-416.   https://handle.slv.vic.gov.au/10381/386642","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"None","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(strickland.peach.uniformity)   dat <- strickland.peach.uniformity    mean(dat$yield) # 131.3, Strickland has 131.3   sd(dat$yield)/mean(dat$yield) # 31.1, Strickland has 34.4    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.peach.uniformity\",           flip=TRUE, aspect=1) }"},{"path":"/reference/strickland.tomato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tomato — strickland.tomato.uniformity","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"Uniformity trial tomato Australia","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"","code":"data(\"strickland.tomato.uniformity\")"},{"path":"/reference/strickland.tomato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"data frame 180 observations following 3 variables. row row col column yield yield per plot, pounds","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"Tomato plants placed 2 feet apart rows 4 feet apart. plot   contained 6 plants. Field dimensions given, likely design : Field length: 6 plots * 6 plants * 2 feet = 72 feet Field width: 30 plots * 4 feet = 120 feet","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":". G. Strickland (1935).   Error horticultural experiments.   Journal Agriculture, Victoria, 33, 408-416.   https://handle.slv.vic.gov.au/10381/386642","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"None","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"","code":"if (FALSE) {  library(agridat)   data(strickland.tomato.uniformity)   dat <- strickland.tomato.uniformity    mean(dat$yield)   sd(dat$yield)    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.tomato.uniformity\",           flip=TRUE, aspect=(6*12)/(30*4)) }"},{"path":"/reference/stroup.nin.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"yield data advanced Nebraska Intrastate Nursery (NIN) breeding   trial conducted Alliance, Nebraska, 1988/89.","code":""},{"path":"/reference/stroup.nin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"gen genotype, 56 levels rep replicate, 4 levels yield yield, bu/ac col column row row","code":""},{"path":"/reference/stroup.nin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"Four replicates 19 released cultivars, 35 experimental   wheat lines 2 additional triticale lines laid 22 row   11 column rectangular array plots.  varieties allocated   plots using randomised complete block (RCB) design.   plot sown four rows 4.3 m long 0.3 m apart.   Plots trimmed 2.4 m length harvest.    orientation plots clear paper, data   Littel et al given meters make orientation clear. Field length: 11 plots * 4.3 m = 47.3 m Field width: 22 plots * 1.2 m = 26.4 m plots missing data coded gen = \"Lancer\".   (ASREML, missing plots need included spatial analysis   level 'gen' needs one already data.) data first analyzed Stroup et al (1994) subsequently   Littell et al (1996, page 321), Pinheiro Bates (2000, page 260),   Butler et al (2004). version data give yield bushels per acre. yield   values published Stroup et al (1994) expressed kg/ha.    wheat, 1 bu/ac = 67.25 kg/ha. gen names different Stroup et al (1994).   (Sometimes experimental genotype given new name   released commercial use.)  minimum, following differences   gen names noted: published versions data use long/lat instead col/row.   obtain correct value 'long', multiply 'col' 1.2.   obtain correct value 'lat', multiply 'row' 4.3. Relatively low yields clustered northwest corner,   explained low rise part field, causing increased   exposure winter kill wind damage thus depressed yield.   genotype 'Buckskin' known superior variety,   disadvantaged assignment unfavorable locations within   blocks. Note figures Stroup 2002 claim based data,   number rows columns 1 positions   Buckskin shown Stroup 2002 appear quite right.","code":""},{"path":"/reference/stroup.nin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"Stroup, Walter W., P Stephen Baenziger, Dieter K Mulitze (1994)   Removing Spatial Variation Wheat Yield Trials: Comparison Methods.   Crop Science, 86:62--66.   https://doi.org/10.2135/cropsci1994.0011183X003400010011x","code":""},{"path":"/reference/stroup.nin.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"Littell, R.C. Milliken, G.. Stroup, W.W. Wolfinger,   R.D. 1996. SAS system mixed models, SAS Institute, Cary, NC. Jose Pinheiro Douglas Bates, 2000,   Mixed Effects Models S S-Plus, Springer. Butler, D., B R Cullis, R Gilmour, B J Goegel.  (2004)   Spatial Analysis Mixed Models S language environments W. W. Stroup (2002).   Power Analysis Based Spatial Effects Mixed Models: Tool   Comparing Design Analysis Strategies Presence Spatial   Variability. Journal Agricultural, Biological,     Environmental Statistics, 7(4), 491-511.   https://doi.org/10.1198/108571102780","code":""},{"path":[]},{"path":"/reference/stroup.nin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"","code":"if (FALSE) {    library(agridat)   data(stroup.nin)   dat <- stroup.nin    # Experiment layout. All \"Buckskin\" plots are near left side and suffer   # from poor fertility in two of the reps.   libs(desplot)   desplot(dat, yield~col*row,           aspect=47.3/26.4, out1=\"rep\", num=gen, cex=0.6, # true aspect           main=\"stroup.nin - yield heatmap (true shape)\")    # Dataframe to hold model predictions   preds <- data.frame(gen=levels(dat$gen))     # -----   # nlme   libs(nlme)   # Random RCB model   lme1 <- lme(yield ~ 0 + gen, random=~1|rep, data=dat, na.action=na.omit)   preds$lme1 <- fixef(lme1)    # Linear (Manhattan distance) correlation model   lme2 <- gls(yield ~ 0 + gen, data=dat,               correlation = corLin(form = ~ col + row, nugget=TRUE),               na.action=na.omit)   preds$lme2 <- coef(lme2)    # Random block and spatial correlation.   # Note: corExp and corSpher give nearly identical results   lme3 <- lme(yield ~ 0 + gen, data=dat,               random = ~ 1 | rep,               correlation = corExp(form = ~ col + row),               na.action=na.omit)   preds$lme3 <- fixef(lme3)    # AIC(lme1,lme2,lme3) # lme2 is lowest   ##      df      AIC   ## lme1 58 1333.702   ## lme2 59 1189.135   ## lme3 59 1216.704     # -----   # SpATS   libs(SpATS)    dat <- transform(dat, yf = as.factor(row), xf = as.factor(col))    # what are colcode and rowcode???   sp1 <- SpATS(response = \"yield\",                spatial = ~ SAP(col, row, nseg = c(10,20), degree = 3, pord = 2),                genotype = \"gen\",                #fixed = ~ colcode + rowcode,                random = ~ yf + xf,                data = dat,                control = list(tolerance = 1e-03))   #plot(sp1)   preds$spats <- predict(sp1, which=\"gen\")$predicted.value     # -----   # Template Model Builder   # See the ar1xar1 example:   # https://github.com/kaskr/adcomp/tree/master/TMB/inst/examples   # This example uses dpois() in the cpp file to model a Poisson response   # with separable AR1xAR1.  I think this example could be used for the   # stroup.nin data, changing dpois() to something Normal.     # -----   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)      # RCB analysis     as1 <- asreml(yield ~ gen, random = ~ rep, data=dat,                   na.action=na.method(x=\"omit\"))     preds$asreml1 <- predict(as1, data=dat, classify=\"gen\")$pvals$predicted.value          # Two-dimensional AR1xAR1 spatial model     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf),]     as2 <- asreml(yield~gen, data=dat,                   residual = ~ar1(xf):ar1(yf),                   na.action=na.method(x=\"omit\"))     preds$asreml2 <- predict(as2, data=dat, classify=\"gen\")$pvals$predicted.value      lucid::vc(as2)     ##     effect component std.error z.ratio constr     ## R!variance   48.7      7.155       6.8    pos     ##   R!xf.cor    0.6555   0.05638    12      unc     ##   R!yf.cor    0.4375   0.0806      5.4    unc    # Compare the estimates from the two asreml models.   # We see that Buckskin has correctly been shifted upward by the spatial model     plot(preds$as1, preds$as2, xlim=c(13,37), ylim=c(13,37),          xlab=\"RCB\", ylab=\"AR1xAR1\", type='n')     title(\"stroup.nin: Comparison of predicted values\")     text(preds$asreml1, preds$asreml2, preds$gen, cex=0.5)     abline(0,1)   }    # -----   # sommer   # Fixed gen, random row, col, 2D spline   libs(sommer)   dat <- stroup.nin   dat <- transform(dat, yf = as.factor(row), xf = as.factor(col))   so1 <- mmer(yield ~ 0+gen,               random = ~ vs(xf) + vs(yf) + spl2Db(row,col),               data=dat)   preds$so1 <- coef(so1)[,\"Estimate\"]   # spatPlot    # -----   # compare variety effects from different packages   lattice::splom(preds[,-1], main=\"stroup.nin\")  }"},{"path":"/reference/stroup.splitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of simulated data — stroup.splitplot","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"simulated dataset simple split-plot experiment, used   illustrate details calculating predictable functions (broad   space, narrow space, etc.). example, density narrow, intermediate broad-space   predictable function factor level A1 shown (html help )","code":""},{"path":"/reference/stroup.splitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"y simulated response rep replicate, 4 levels b sub-plot, 2 levels whole-plot, 3 levels Used permission Walt Stroup.","code":""},{"path":"/reference/stroup.splitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"Walter W. Stroup, 1989.   Predictable functions prediction space mixed model procedure.   Applications Mixed Models Agriculture Related Disciplines.","code":""},{"path":"/reference/stroup.splitplot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"Wolfinger, R.D. Kass, R.E., 2000.   Nonconjugate Bayesian analysis variance component models,   Biometrics, 56, 768--774.   https://doi.org/10.1111/j.0006-341X.2000.00768.x","code":""},{"path":"/reference/stroup.splitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"","code":"if (FALSE) {      library(agridat)   data(stroup.splitplot)   dat <- stroup.splitplot    # ---- lme4 ---   # libs(lme4)   # m0 <- lmer(y~ -1 + a + b + a:b + (1|rep) + (1|a:rep), data=dat)   # No predict function      # ----- nlme ---   # libs(nlme)   # m0 <- lme(y ~ -1 + a + b + a:b, data=dat, random = ~ 1|rep/a)      # ----- ASREML model ---   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     m1 <- asreml(y~ -1 + a + b + a:b, random=~ rep + a:rep, data=dat)        # vc(m1) # Variance components match Stroup p. 41     ##   effect component std.error z.ratio bound     ##      rep    62.42     56.41      1.1     P     ##    a:rep    15.39     11.8       1.3     P     ## units(R)     9.364     4.415     2.1     P          # Narrow space predictions     predict(m1, data=dat, classify=\"a\", average=list(rep=NULL))     #  a Predicted Std Err    Status     # a1     32.88   1.082 Estimable     # a2     34.12   1.082 Estimable     # a3     25.75   1.082 Estimable          # Intermediate space predictions     predict(m1, data=dat, classify=\"a\", ignore=\"a:rep\",             average=list(rep=NULL))     #  a Predicted Std Err    Status     # a1     32.88    2.24 Estimable     # a2     34.12    2.24 Estimable     # a3     25.75    2.24 Estimable          # Broad space predictions     predict(m1, data=dat, classify=\"a\")     #  a Predicted Std Err    Status     # a1     32.88    4.54 Estimable     # a2     34.12    4.54 Estimable     # a3     25.75    4.54 Estimable   }        # ----- MCMCglmm model -----   # Use the point estimates from REML with a prior distribution   libs(lattice,MCMCglmm)   prior2 = list(     G = list(G1=list(V=62.40, nu=1),              G2=list(V=15.38, nu=1)),     R = list(V = 9.4, nu=1)   )   m2 <- MCMCglmm(y~ -1 + a + b + a:b,                  random=~ rep + a:rep, data=dat,                  pr=TRUE, # save random effects as columns of 'Sol'                  nitt=23000, # double the default 13000                  prior=prior2, verbose=FALSE)    # posterior.mode(m2$VCV)   #       rep     a:rep     units    # 39.766020  9.617522  7.409334   # plot(m2$VCV)    # Now create a matrix of coefficients for the prediction.   # Each column is for a different prediction.  For example,   # the values in the column called 'a1a2n' are multiplied times   # the model coefficients (identified at the right side) to create   # the linear contrast for the the narrow-space predictions   # (also called adjusted mean) for the a1:a2 interaction.   #              a1n   a1i  a1b a1a2n a1a2ib   cm <- matrix(c(1,   1,   1,    1,    1,   # a1                  0,   0,   0,   -1,   -1,   # a2                  0,   0,   0,    0,    0,   # a3                  1/2, 1/2, 1/2,    0,    0,   # b2                  0,   0,   0,  -1/2,  -1/2, # a2:b2                  0,   0,   0,    0,    0,   # a3:b2                  1/4, 1/4,   0,    0,    0,   # r1                  1/4, 1/4,   0,    0,    0,   # r2                  1/4, 1/4,   0,    0,    0,   # r3                  1/4, 1/4,   0,    0,    0,   # r4                  1/4,   0,   0,  1/4,    0,   # a1r1                  0,   0,   0, -1/4,    0,   # a2r1                  0,   0,   0,    0,    0,   # a3r1                1/4,   0,   0,  1/4,    0,   # a1r2                  0,   0,   0, -1/4,    0,   # a2r2                  0,   0,   0,    0,    0,   # a3r2                1/4,   0,   0,  1/4,    0,   # a1r3                  0,   0,   0, -1/4,    0,   # a2r3                  0,   0,   0,    0,    0,   # a3r3                1/4,   0,   0,  1/4,    0,   # a1r4                  0,   0,   0, -1/4,    0,   # a2r4                  0,   0,   0,    0,    0),  # a3r4                ncol=5, byrow=TRUE)   rownames(cm) <-   c(\"a1\", \"a2\", \"a3\", \"b2\", \"a2:b2\", \"a3:b2\",                       \"r1\", \"r2\", \"r3\", \"r4\",                       \"a1r1\", \"a1r2\", \"a1r3\", \"a1r4\", \"a2r1\", \"a2r2\",                       \"a2r3\", \"a2r4\", \"a3r1\", \"a3r2\",  \"a3r3\", \"a3r4\")   colnames(cm) <- c(\"A1n\",\"A1i\",\"A1b\", \"A1-A2n\", \"A1-A2ib\")   print(cm)   # post2 <- as.mcmc(m2$Sol    post2 <- as.mcmc(crossprod(t(m2$Sol), cm))    # Following table has columns for A1 estimate (narrow, intermediate, broad)   # A1-A2 estimate (narrow and intermediat/broad).   # The REML estimates are from Stroup 1989.   est <- rbind(\"REML est\"=c(32.88, 32.88, 32.88, -1.25, -1.25),                \"REML stderr\"=c(1.08, 2.24, 4.54, 1.53, 3.17),                \"MCMC mode\"=posterior.mode(post2),                \"MCMC stderr\"=apply(post2, 2, sd))   round(est,2)   #               A1n   A1i   A1b A1-A2n A1-A2ib   # REML est    32.88 32.88 32.88  -1.25   -1.25   # REML stderr  1.08  2.24  4.54   1.53    3.17   # MCMC mode   32.95 32.38 31.96  -1.07   -1.17   # MCMC stderr  1.23  2.64  5.93   1.72    3.73   # plot(post2)      post22 <- lattice::make.groups(     Narrow=post2[,1], Intermediate=post2[,2], Broad=post2[,3])   print(densityplot(~data|which, data=post22, groups=which,                     cex=.25, lty=1, layout=c(1,3),                     main=\"stroup.splitplot\",                     xlab=\"MCMC model value of predictable function for A1\"))  }"},{"path":"/reference/student.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley — student.barley","title":"Multi-environment trial of barley — student.barley","text":"Yield two varieties barley grown 51 locations years   1901 1906.","code":""},{"path":"/reference/student.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley — student.barley","text":"data frame 102 observations following 7 variables. year year, 1901-1906 farmer farmer name place place (nearest town) district district, geographical area gen genotype, Archer Goldthorpe yield yield, 'stones' per acre (1 stone = 14 pounds) income income per acre shillings, based yield quality","code":""},{"path":"/reference/student.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley — student.barley","text":"Experiments conducted six years Department   Agriculture Ireland.  total seven varieties tested,   Archer Goldthorpe tested six years (others   dropped found inferior, added later).  Plots   two acres size.  value grain depended yield   quality.  Quality varied much farm farm, much within   farm. phrase \"analysis variance\" first appears abstract ()   1918 paper Fisher.  1923 paper Student contained   first analysis variance table (data). One stone 14 pounds.   convert lb/ac tonnes/ha, multiply 0.00112085116 Note: analysis Student reproduced exactly.    example, Student states maximum income Goldthorpe 230   shillings.  quick glance Table Student shows   maximum income Goldthorpe 220 shillings (11 pounds, 0   shillings) 1901 Thurles.  Also, results Kempton   reproduced exactly, perhaps due rounding conversion   factor used.","code":""},{"path":"/reference/student.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley — student.barley","text":"Student. 1923.   Testing Varieties Cereals.   Biometrika, 15, 271--293.   https://doi.org/10.1093/biomet/15.3-4.271","code":""},{"path":"/reference/student.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley — student.barley","text":"R Kempton P N Fox, 1997.   Statistical Methods Plant Variety Evaluation.","code":""},{"path":"/reference/student.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley — student.barley","text":"","code":"if (FALSE) {      library(agridat)   data(student.barley)   dat <- student.barley    libs(lattice)   bwplot(yield ~ gen|district, dat, main=\"student.barley - yield\")    dat$year <- factor(dat$year)   dat$income <- NULL      # convert to tons/ha   dat <- transform(dat, yield=yield*14 * 0.00112085116)      # Define 'loc' the way that Kempton does   dat$loc <- rep(\"\",nrow(dat))   dat[is.element(dat$farmer, c(\"Allardyce\",\"Roche\",\"Quinn\")),\"loc\"] <- \"1\"   dat[is.element(dat$farmer, c(\"Luttrell\",\"Dooley\")), \"loc\"] <- \"2\"   dat[is.element(dat$year, c(\"1904\",\"1905\",\"1906\")) & dat$farmer==\"Kearney\",\"loc\"] <- \"2\"   dat[dat$farmer==\"Mulhall\",\"loc\"] <- \"3\"      dat <- transform(dat, loc=factor(paste(place,loc,sep=\"\")))      libs(reshape2)   datm <- melt(dat, measure.var='yield')    # Kempton Table 9.5   round(acast(datm, loc+gen~year),2)    # Kempton Table 9.6   d2 <- dcast(datm, year+loc~gen)   mean(d2$Archer)   mean(d2$Goldthorpe)   mean(d2$Archer-d2$Goldthorpe)   sqrt(var(d2$Archer-d2$Goldthorpe)/51)   cor(d2$Archer,d2$Goldthorpe)   if(0){   # Kempton Table 9.6b   libs(lme4)   m2 <- lmer(yield~1 + (1|loc) + (1|year) +                (1|loc:year) + (1|gen:loc) + (1|gen:year), data=dat,              control=lmerControl(check.nobs.vs.rankZ=\"ignore\")) }  }"},{"path":"/reference/summerby.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"Uniformity trial maize, oat, alfalfa, mangolds","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"","code":"data(\"summerby.multi.uniformity\")"},{"path":"/reference/summerby.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"data frame 2600 observations following 6 variables. col column ordinate row row ordinate yield yield range range (block field) year year crop crop","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"Note plots range across years.   example plots range R2 1922, 1923, 1924,   1925. Grown Macdonald College, Quebec.   Four ranges land 760 x 100 links used.   years 1922-1926, crops harvested 20 link 20 links   plots. oats, yields cleaned grain.   mangolds alfalfa, yields dry matter calculated.   maize, green weights fodder obtained.   1925, range R3 oats damaged birds.   1927, range R4 oats lodges harvested.   1924 range R5 flooding considered 'inadvisable' use.   1914 range R3 oat yield variable, perhaps poor germination.   Data included completeness, perhaps included. row numbers data based figure page 13 Summerby.   Row 1 bottom. appears approximately blank row ranges. data converted PDF png images, OCR converted   text, hand-checked K.Wright.","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"Summerby, R. (1934).   value preliminary uniformity trials increasing precision field experiments.   Macdonald College.   https://books.google.com/books?id=6zlMAAAAYAAJ&pg=RA14-PA47","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"None","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(summerby.multi.uniformity)   dat <- summerby.multi.uniformity    libs(desplot)   dat <- mutate(dat, env=paste(range, year, crop))   desplot(dat, yield ~ col*row|env, aspect=(5*20)/(35*20),           main=\"summerby.multi.uniformity\")    # Show all ranges for a single year.   # dat     # Compare the variance for each dataset in Summerby, page 18, column (a)   # with what we calculate.  Very slight differences.   # libs(dplyr)   # dat    ## range  year       var  summerby   ##  1 R2     1922  82404      82404   ##  2 R2     1923 254780.    254780     ##  3 R2     1924 111978.    111978     ##  4 R2     1925  84515.     84515     ##  5 R2     1926 101008.    100960     ##  6 R3     1922 185031.    185031     ##  7 R3     1923 154777.    154784    ##  8 R3     1924 252451.    252451     ##  9 R3     1926 472087.    472088     ## 10 R4     1924     19.3       19.341    ## 11 R4     1925     14.2       14.234    ## 12 R4     1926     14.2       14.236    ## 13 R5     1924 134472.    134472     ## 14 R5     1925 289001.    289026     ## 15 R5     1926 131714.    131714     ## 16 R5     1927      8.62       8.622  }"},{"path":"/reference/tai.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of potato — tai.potato","title":"Multi-environment trial of potato — tai.potato","text":"Multi-environment trial potato tuber yields","code":""},{"path":"/reference/tai.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of potato — tai.potato","text":"","code":"data(\"tai.potato\")"},{"path":"/reference/tai.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of potato — tai.potato","text":"data frame 48 observations following 6 variables. yield yield, kg/plot gen genotype code variety variety name env environment code loc location year year","code":""},{"path":"/reference/tai.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of potato — tai.potato","text":"Mean tuber yield 8 genotypes 3 locations two years.   Katahdin Sebago check varieties.  location planted   4-rep RCB design. Tai's plot stability parameters, F5751 Sebago   average stability area.  highest yielding genotype F6032   unstable performance.","code":""},{"path":"/reference/tai.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of potato — tai.potato","text":"G.C.C. Tai, 1971.   Genotypic stability analysis application potato regional trials.   Crop Sci 11, 184-190.  Table 2, p. 187.   https://doi.org/10.2135/cropsci1971.0011183X001100020006x","code":""},{"path":"/reference/tai.potato.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of potato — tai.potato","text":"George Fernandez (1991).   Analysis Genotype x Environment Interaction Stability Estimates.   Hort Science, 26, 947-950.","code":""},{"path":"/reference/tai.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of potato — tai.potato","text":"","code":"if (FALSE) {  library(agridat) data(tai.potato) dat <- tai.potato  libs(lattice) dotplot(variety ~ yield|env, dat, main=\"tai.potato\")  # fixme - need to add tai() example  # note, st4gi::tai assumes there are replications in the data # https://github.com/reyzaguirre/st4gi/blob/master/R/tai.R }"},{"path":"/reference/talbot.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"Yield 14 trait scores 9 potato varieties 12   locations UK.","code":""},{"path":"/reference/talbot.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"","code":"data(\"talbot.potato.traits\") data(\"talbot.potato.yield\")"},{"path":"/reference/talbot.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"talbot.potato.yield dataframe 126 observations following 3 variables. gen genotype/variety trait trait score trait score, 1-9 talbot.potato.yield dataframe 108 observations following 3 variables. gen genotype/variety loc location/center yield yield, t/ha","code":""},{"path":"/reference/talbot.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"talbot.potato.yield dataframe contains mean tuber yields   (t/ha) 9 varieties potato 12 centers United Kingdom   five years 1983-1987.  following abbreviations used   centers.  Used permission Mike Talbot.","code":""},{"path":"/reference/talbot.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"Mike Talbot V Wheelwright, 1989,   analysis genotype x analysis interactions partial   least squares regression.   Biuletyn Oceny Odmian, 21/22, 19--25.","code":""},{"path":"/reference/talbot.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"","code":"if (FALSE) {  library(agridat)  libs(pls, reshape2)  data(talbot.potato.traits) datt <- talbot.potato.traits data(talbot.potato.yield) daty <- talbot.potato.yield  datt <- acast(datt, gen ~ trait, value.var='score') daty <- acast(daty, gen ~ loc, value.var='yield')    # Transform columns to zero mean and unit variance datt <- scale(datt) daty <- scale(daty)  m1 <- plsr(daty ~ datt, ncomp=3) summary(m1)  # Loadings factor 1 lo <- loadings(m1)[,1,drop=FALSE] round(-1*lo[order(-1*lo),1,drop=FALSE],2)  biplot(m1, main=\"talbot.potato - biplot\")  }"},{"path":"/reference/tesfaye.millet.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of millet — tesfaye.millet","title":"Multi-environment trial of millet — tesfaye.millet","text":"Multi-environment trial millet","code":""},{"path":"/reference/tesfaye.millet.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of millet — tesfaye.millet","text":"","code":"data(\"tesfaye.millet\")"},{"path":"/reference/tesfaye.millet.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of millet — tesfaye.millet","text":"data frame 415 observations following 9 variables. year year site site (location) rep replicate col column ordinate row row ordinate plot plot number gen genotype entry_number entry yield yield, kg/ha","code":""},{"path":"/reference/tesfaye.millet.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of millet — tesfaye.millet","text":"Experiments conducted Bako Assosa research centers Ethiopia.   data :   4 years, 2 sites = 7 environments,    2-3 reps per trial,    47 genotypes. Tesfaye et al used asreml fit GxE model Factor Analytic   covariance structure GxE part AR1xAR1 spatial   residuals site. Data PloS ONE  published Creative Commons Attribution License.","code":""},{"path":"/reference/tesfaye.millet.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of millet — tesfaye.millet","text":"Tesfaye K, Alemu T, Argaw T, de Villiers S, Assefa E (2023)   Evaluation finger millet (Eleusine coracana (L.) Gaertn.) multi-environment trials using enhanced statistical models.   PLoS ONE 18(2): e0277499.   https://doi.org/10.1371/journal.pone.0277499","code":""},{"path":"/reference/tesfaye.millet.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of millet — tesfaye.millet","text":"None","code":""},{"path":"/reference/tesfaye.millet.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of millet — tesfaye.millet","text":"","code":"if (FALSE) {    library(agridat)   data(tesfaye.millet)   dat <- tesfaye.millet    dat <- transform(dat, year=factor(year), site=factor(site))   libs(dplyr,asreml,lucid)   dat <- mutate(dat,                 env=factor(paste0(site,year)),                 gen=factor(gen),                 rep=factor(rep),                 xfac=factor(col), yfac=factor(row))   libs(desplot)   desplot(dat, yield~col*row|env, main=\"tesfaye.millet\")   dat <- arrange(dat, env, xfac, yfac)    # Fixed environment   # Random row/col within environment, Factor Analytic GxE   # AR1xAR1 spatial residuals within each environment   if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     m1 <- asreml(yield ~ 1 + env,                  data=dat,                  random = ~  at(env):xfac + at(env):yfac + gen:fa(env),                  residual = ~ dsum( ~ ar1(xfac):ar1(yfac)|env) )     m1 <- update(m1)     lucid::vc(m1)   }  }"},{"path":"/reference/theobald.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"Barley yields multiple locs, years, fertilizer levels","code":""},{"path":"/reference/theobald.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"","code":"data(\"theobald.barley\")"},{"path":"/reference/theobald.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"data frame 105 observations following 5 variables. yield yield, tonnes/ha gen genotype loc location, 5 levels nitro nitrogen kg/ha year year, 2 levels","code":""},{"path":"/reference/theobald.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"Theobald Talbot used BUGS fit fully Bayesian model   yield response curves. Locations experiment north-east Scotland. Assumed nitrogen cost 400 pounds per tonne.   Grain prices used 100, 110, 107.50 pounds per tonne   Georgie, Midas Sundance.","code":""},{"path":"/reference/theobald.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"Chris M. Theobald Mike Talbot, (2002).   Bayesian choice crop variety fertilizer dose.   Appl Statistics, 51, 23-36.   https://doi.org/10.1111/1467-9876.04863 Data provided Chris Theobald Mike Talbot.","code":""},{"path":"/reference/theobald.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"","code":"if (FALSE) {  library(agridat)  data(theobald.barley) dat <- theobald.barley dat <- transform(dat,  env=paste(loc,year,sep=\"-\")) dat <- transform(dat, income=100*yield - 400*nitro/1000)  libs(lattice) xyplot(income~nitro|env, dat, groups=gen, type='b',        auto.key=list(columns=3), main=\"theobald.barley\")  }"},{"path":"/reference/theobald.covariate.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"Corn silage yields maize 5 years 7 districts 10 hybrids.","code":""},{"path":"/reference/theobald.covariate.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"data frame 256 observations following 5 variables. year year, 1990-1994 env environment/district, 1-7 gen genotype, 1-10 yield dry-matter silage yield corn chu corn heat units, thousand degrees Celsius Used permission Chris Theobald.","code":""},{"path":"/reference/theobald.covariate.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"trials carried seven districts maritime   provinces Eastern Canada.   Different fields used successive years.   covariate CHU (Corn Heat Units) accumulated average daily   temperatures (thousands degrees Celsius) growing season   location.","code":""},{"path":"/reference/theobald.covariate.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"Chris M. Theobald Mike Talbot Fabian Nabugoomu, 2002.   Bayesian Approach Regional Local-Area Prediction Crop   Variety Trials.   Journ Agric Biol Env Sciences, 7, 403--419.   https://doi.org/10.1198/108571102230","code":""},{"path":"/reference/theobald.covariate.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"","code":"if (FALSE) {    library(agridat)   data(theobald.covariate)   dat <- theobald.covariate   libs(lattice)   xyplot(yield ~ chu|gen, dat, type=c('p','smooth'),          xlab =  \"chu = corn heat units\",          main=\"theobald.covariate - yield vs heat\")    # REML estimates (Means) in table 3 of Theobald 2002   libs(lme4)   dat <- transform(dat, year=factor(year))   m0 <- lmer(yield ~ -1 + gen + (1|year/env) + (1|gen:year), data=dat)   round(fixef(m0),2)     # Use JAGS to fit Theobald (2002) model 3.2 with 'Expert' prior   # Requires JAGS to be installed   if(0) {    libs(reshape2)   ymat <- acast(dat, year+env~gen, value.var='yield')   chu <- acast(dat, year+env~., mean, value.var='chu', na.rm=TRUE)   chu <- as.vector(chu - mean(chu))  # Center the covariate   dat$yr <- as.numeric(dat$year)   yridx <- as.vector(acast(dat, year+env~., mean, value.var='yr', na.rm=TRUE))   dat$loc <- as.numeric(dat$env)   locidx <- acast(dat, year+env~., mean, value.var='loc', na.rm=TRUE)   locidx <- as.vector(locidx)    jdat <- list(nVar = 10, nYear = 5, nLoc = 7, nYL = 29, yield = ymat,               chu = chu, year = yridx, loc = locidx)    libs(rjags)   m1 <- jags.model(file=system.file(package=\"agridat\", \"files/theobald.covariate.jag\"),     data=jdat, n.chains=2)    # Table 3, Variety deviations from means (Expert prior)   c1 <- coda.samples(m1, variable.names=(c('alpha')),                      n.iter=10000, thin=10)   s1 <- summary(c1)   effs <- s1$statistics[,'Mean']   # Perfect match (different order?)   rev(sort(round(effs - mean(effs), 2)))    } }"},{"path":"/reference/thompson.cornsoy.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Average yield corn soybeans five U.S. states   (IA, IL, , MO, OH) years 1930-1962.   Pre-season precipitation average temperature precipitation   month growing season included.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"state state year year, 1930-1962 rain0 pre-season precipitation inches temp5 may temperature, Fahrenheit rain6 june rain, inches temp6 june temp rain7 july rain temp7 july temp rain8 august rain temp8 august temp corn corn yield, bu/acre soy soybean yield, bu/acre","code":""},{"path":"/reference/thompson.cornsoy.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Note: Iowa corn data sometimes identified (  sources) \"Iowa wheat\" data, incorrect. 'year' variable affects yield (1) improvements   plant genetics (2) changes management techniques   fertilizer, chemicals, tillage, planting date,   (3) climate, pest infestations, etc. Double-cross corn hybrids introduced 1920s.  Single-cross   hybrids became common around 1960. World War II, nitrogen used production TNT   bombs.  war, factories switched producing ammonia   fertilizer.  Nitrogen fertilizer use greatly increased WWII   major reason yield gains corn.  Soybeans gain little   benefit nitrogen fertilizer.  major reason   increasing yields crops due improved plant genetics. Crops often planted May, harvest begins September. Yields 1936 low due July one hottest   driest record. relevant maps yield, heat, precipitation can found   Atlas crop yield summer weather patterns, 1931-1975,   https://www.isws.illinois.edu/pubdoc/C/ISWSC-150.pdf following notes pertain Iowa data. 1947 June precipitation 10.33 inches wettest June   record (new Iowa June record 10.34 inches set 2010).   quoted Monthly Weather Review (Dec 1957, p. 396)   \"dependence Iowa agriculture upon vagaries weather   closely demonstrated 1947 season.  cool wet spring   delayed crop planting activity plant growth;   , addition, hard freeze May 29th ... set back   corn.  heavy rains subsequent floods June caused   appreciable crop acreage abandoned ... followed hot dry   weather regime persisted mid-July first week   September.\" 1949 soybean yields average corn yields low.   source ,   \"year 1949 saw greatest infestation corn borer   history corn Iowa\". 1955 yields reduced due dry weather late July August.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Thompson, L.M., 1963. Weather technology production     corn soybeans. CAED Report 17. Center Agriculture   Economic Development, Iowa State University, Ames, Iowa.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Draper, N. R. Smith, H. (1981).  Applied Regression Analysis,   second ed., Wiley, New York.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"","code":"if (FALSE) {  library(agridat)  data(thompson.cornsoy) dat <- thompson.cornsoy  # The droughts of 1934/36 were severe in IA/MO. Less so in OH. libs(lattice) xyplot(corn+soy~year|state, dat,        type=c('p','l','r'), auto.key=list(columns=2),        main=\"thompson.cornsoy\",        layout=c(5,1),ylab='yield')  # In 1954, only Missouri suffered very hot, dry weather ## xyplot(corn~year, dat, ##        groups=state, type=c('p','l'), ##        main=\"thompson.cornsoy\", ##        auto.key=list(columns=5), ylab='corn yield')  # Rain and temperature have negative correlation in each month. # July is a critical month: temp and yield are negatively correlated, # while rain and yield are positively correlated. # splom(~dat[-1,-1], col=dat$state, cex=.5, main=\"thompson.cornsoy\")    # Plots similar to those in Venables' Exegeses paper.    dat.ia <- subset(dat, state==\"Iowa\")    libs(splines)   m2 <- aov(corn ~ ns(rain0, 3) + ns(rain7, 3) +               ns(temp8, 3) + ns(year,3), dat.ia)   op <- par(mfrow=c(2,2))   termplot(m2, se=TRUE, rug=TRUE, partial=TRUE, main=\"thompson.cornsoy\")   par(op)    # do NOT use gam package   libs(mgcv)   m1 <- gam(corn ~ s(year, k=5) + s(rain0, k=5) +               s(rain7, k=5) + s(temp8, k=5), data=dat.ia)   op <- par(mfrow=c(2,2))   plot.gam(m1, residuals=TRUE, se=TRUE, cex=2, main=\"thompson.cornsoy\")   par(op) }"},{"path":"/reference/tulaikow.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"Uniformity trial winter/spring wheat Russia","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"","code":"data(\"tulaikow.wheat.uniformity\")"},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"data frame 480 observations following 4 variables. row row ordinate col column ordinate yield yield grams per plot season winter summer","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"Land fallow 1911, harvested 1912 Bezenchuk   Experimental Station Russia. winter wheat field 240 square   sazhen (24 x 10 sazhen) divided separate plots   1 square sazhen, cut, threshed weighed separately. way, plot Poltavka spring wheat harvested plot   240 square sazhen dimensions 15 16 sazhen divided   plots 1 square sazhen. Winter wheat: Field length: 10 rows * 1 sazhen. Field width: 24 columns * 1 sazhen. Summer wheat: Field length: 16 rows * 1 sazhen. Field width: 15 columns * 1 sazhen. Note: Russian word “саж” refers unit   measurement. Specifically, represents sazhen (саже́нь   са́жень), used traditional Russian systems   measurement. sazhen approximately 3 meters (7 feet)   long. Google Translate sometimes converts \"sazhen\" \"soot\",   \"meter\" \"fathom\". data typed K.Wright Roemer (1920), table 4, p. 63.","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"N. Tulaikow (1913)   Resultate einer mathematischen Bearbeitung von Ernteergebnissen.   Russian Journal fur Exp Landw., 14, 88-113. https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/i2EjAQAAIAAJ?hl=en&gbpv=1&dq=tulaikow","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180. Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(tulaikow.wheat.uniformity)   dat <- tulaikow.wheat.uniformity      libs(desplot)   desplot(dat, yield~col*row, subset=season==\"winter\",           aspect=10/24, flip=TRUE, tick=TRUE,           main=\"tulaikow.wheat.uniformity (winter)\")   desplot(dat, yield~col*row, subset=season==\"summer\",           aspect=16/15, flip=TRUE, tick=TRUE,           main=\"tulaikow.wheat.uniformity (summer)\") }"},{"path":"/reference/turner.herbicide.html","id":null,"dir":"Reference","previous_headings":"","what":"Herbicide control of larkspur — turner.herbicide","title":"Herbicide control of larkspur — turner.herbicide","text":"Herbicide control larkspur","code":""},{"path":"/reference/turner.herbicide.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Herbicide control of larkspur — turner.herbicide","text":"","code":"data(\"turner.herbicide\")"},{"path":"/reference/turner.herbicide.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Herbicide control of larkspur — turner.herbicide","text":"data frame 12 observations following 4 variables. rep rep factor rate rate herbicide live number live plants application dead number plants killed herbicide","code":""},{"path":"/reference/turner.herbicide.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Herbicide control of larkspur — turner.herbicide","text":"Effectiveness herbicide Picloram larkspur plants 4 doses   (0, 1.1, 2.2, 4.5) 3 reps.  Experiment done 1986 Manti,   Utah.","code":""},{"path":"/reference/turner.herbicide.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Herbicide control of larkspur — turner.herbicide","text":"David L. Turner Michael H. Ralphs John O. Evans (1992).   Logistic Analysis Monitoring Assessing Herbicide Efficacy.   Weed Technology, 6, 424-430.   https://www.jstor.org/stable/3987312","code":""},{"path":"/reference/turner.herbicide.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Herbicide control of larkspur — turner.herbicide","text":"Christopher Bilder, Thomas Loughin.   Analysis Categorical Data R.","code":""},{"path":"/reference/turner.herbicide.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Herbicide control of larkspur — turner.herbicide","text":"","code":"if (FALSE) {      library(agridat)   data(turner.herbicide)   dat <- turner.herbicide      dat <- transform(dat, prop=dead/live)   # xyplot(prop~rate,dat, pch=20, main=\"turner.herbicide\", ylab=\"Proportion killed\")    m1 <- glm(prop~rate, data=dat, weights=live, family=binomial)   coef(m1) # -3.46, 2.6567  Same as Turner eqn 3      # Make conf int on link scale and back-transform   p1 <- expand.grid(rate=seq(0,to=5,length=50))   p1 <- cbind(p1, predict(m1, newdata=p1, type='link', se.fit=TRUE))   p1 <- transform(p1, lo = plogis(fit - 2*se.fit),                   fit = plogis(fit),                   up = plogis(fit + 2*se.fit))      # Figure 2 of Turner   libs(latticeExtra)   foo1 <- xyplot(prop~rate,dat, cex=1.5,                  main=\"turner.herbicide (model with 2*S.E.)\",                  xlab=\"Herbicide rate\", ylab=\"Proportion killed\")   foo2 <- xyplot(fit~rate, p1, type='l')   foo3 <- xyplot(lo+up~rate, p1, type='l', lty=1, col='gray')   print(foo1 + foo2 + foo3)     # What dose gives a LD90 percent kill rate?   # libs(MASS)   # dose.p(m1, p=.9)   ##             Dose       SE   ## p = 0.9: 2.12939 0.128418    # Alternative method   # libs(car) # logit(.9) = 2.197225   # deltaMethod(m1, g=\"(log(.9/(1-.9))-b0)/(b1)\", parameterNames=c('b0','b1'))   ##                      Estimate       SE   ## (2.197225 - b0)/(b1)  2.12939 0.128418      # What is a 95 percent conf interval for LD90?  Bilder & Loughin page 138   root <- function(x, prob=.9, alpha=0.05){     co <- coef(m1)    # b0,b1     covs <- vcov(m1)  # b00,b11,b01     # .95 = b0 + b1*x     # (b0+b1*x) + Z(alpha/2) * sqrt(b00 + x^2*b11 + 2*x*b01) > .95     # (b0+b1*x) - Z(alpha/2) * sqrt(b00 + x^2*b11 + 2*x*b01) < .95     f <- abs(co[1] + co[2]*x - log(prob/(1-prob))) /       sqrt(covs[1,1] + x^2 * covs[2,2] + 2*x*covs[1,2])     return( f - qnorm(1-alpha/2))   }   lower <- uniroot(f=root, c(0,2.13))   upper <- uniroot(f=root, c(2.12, 5))   c(lower$root, upper$root)   # 1.92 2.45    }"},{"path":"/reference/urquhart.feedlot.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight gain calves in a feedlot — urquhart.feedlot","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"Weight gain calves feedlot, given three different diets.","code":""},{"path":"/reference/urquhart.feedlot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"","code":"data(\"urquhart.feedlot\")"},{"path":"/reference/urquhart.feedlot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"data frame 67 observations following 5 variables. animal animal ID herd herd ID diet diet: Low, Medium, High weight1 initial weight weight2 slaughter weight","code":""},{"path":"/reference/urquhart.feedlot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"Calves born 1975 11 different herds entered feedlot   yearlings. animal fed one three diets low, medium,   high energy. original sources explored use contrasts   comparing breeds.","code":""},{"path":"/reference/urquhart.feedlot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"N. Scott Urquhart (1982).   Adjustment Covariance One Factor Affects Covariate   Biometrics, 38, 651-660.  Table 4, p. 659.   https://doi.org/10.2307/2530046","code":""},{"path":"/reference/urquhart.feedlot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"N. Scott Urquhart David L. Weeks (1978).   Linear Models Messy Data: Problems Alternatives   Biometrics, 34, 696-705.   https://doi.org/10.2307/2530391 Also available 'emmeans' package 'feedlot' data.","code":""},{"path":"/reference/urquhart.feedlot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"","code":"if (FALSE) {      library(agridat)   data(urquhart.feedlot)   dat <- urquhart.feedlot    libs(reshape2)   d2 <- melt(dat, id.vars=c('animal','herd','diet'))    libs(latticeExtra)   useOuterStrips(xyplot(value ~ variable|diet*herd, data=d2, group=animal,                         type='l',                         xlab=\"Initial & slaughter timepoint for each diet\",                         ylab=\"Weight for each herd\",                         main=\"urquhart.feedlot - weight gain by animal\"))     # simple fixed-effects model    dat <- transform(dat, animal = factor(animal), herd=factor(herd))   m1 <- lm(weight2 ~ weight1 + herd*diet, data = dat)   coef(m1) # weight1 = 1.1373 match Urquhart table 5 common slope      # random-effects model might be better, for example   # libs(lme4)   # m1 <- lmer(weight2 ~ -1 + diet + weight1 + (1|herd), data=dat)   # summary(m1) # weight1 = 1.2269    }"},{"path":"/reference/usgs.herbicides.html","id":null,"dir":"Reference","previous_headings":"","what":"Concentrations of herbicides in streams in the United States — usgs.herbicides","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"Concentrations selected herbicides degradation products   determined laboratory method analysis code GCS water samples   collected 51 streams nine Midwestern States,2002","code":""},{"path":"/reference/usgs.herbicides.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"","code":"data(\"usgs.herbicides\")"},{"path":"/reference/usgs.herbicides.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"data frame 184 observations following 19 variables. mapnum map number usgsid USGS ID long longitude lat latitude site site name city city sampletype sample type code date date sample collected hour hour sample collected acetochlor concentration character alachlor concentration character ametryn concentration character atrazine concentration character CIAT concentration character CEAT concentration character cyanazine concentration character CAM concentration character dimethenamid concentration character flufenacet concentration character","code":""},{"path":"/reference/usgs.herbicides.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"Concentrations selected herbicides degradation products determined laboratory method analysis code GCS water samples collected 51 streams nine Midwestern States, 2002. concentrations micrograms/liter, \"<\" means \"less \". data character format allow \"<\". original report contains data herbicides. data illustrative purposes. Sample types: CR = concurrent replicate sample, FB = field blank, LD = laboratory duplicate, S1 = sample pre-emergence runoff, S2 = sample post-emergence runoff, S3 = sample harvest-season runoff.","code":""},{"path":"/reference/usgs.herbicides.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"Scribner, E.., Battaglin, W.., Dietze, J.E., Thurman, E.M.,   \"Reconnaissance Data Glyphosate, Selected Herbicides, Degradation Products, Antibiotics 51 streams Nine Midwestern States, 2002\".   U.S. Geological Survey Open File Report 03-217.   Herbicide data table 5, page 30-37. Site coordinates page 7-8.   https://ks.water.usgs.gov/pubs/reports/ofr.03-217.html","code":""},{"path":"/reference/usgs.herbicides.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"None.","code":""},{"path":"/reference/usgs.herbicides.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"","code":"if (FALSE) {      library(agridat)   data(usgs.herbicides)   dat <- usgs.herbicides       libs(NADA)   # create censored data for one trait   dat$y <- as.numeric(dat$atrazine)   dat$ycen <- is.na(dat$y)   dat$y[is.na(dat$y)] <- .05      # percent censored   with(dat, censummary(y, censored=ycen))   # median/mean   with(dat, cenmle(y, ycen, dist=\"lognormal\"))   # boxplot   with(dat, cenboxplot(obs=y, cen=ycen, log=FALSE,                        main=\"usgs.herbicides\"))   # with(dat, boxplot(y))   pp <- with(dat, ros(obs=y, censored=ycen, forwardT=\"log\")) # default lognormal   plot(pp)     plotfun <- function(vv){     dat$y <- as.numeric(dat[[vv]])     dat$ycen <- is.na(dat$y)     dat$y[is.na(dat$y)] <- .01     # qqnorm(log(dat$y), main=vv) # ordinary qq plot shows censored values     pp <- with(dat, ros(obs=y, censored=ycen, forwardT=\"log\"))     plot(pp, main=vv) # omits censored values   }   op <- par(mfrow=c(3,3))   vnames <- c(\"acetochlor\", \"alachlor\", \"ametryn\", \"atrazine\",\"CIAT\", \"CEAT\", \"cyanazine\", #\"CAM\",               \"dimethenamid\", \"flufenacet\")   for(vv in vnames) plotfun(vv)   par(op)    }"},{"path":"/reference/vaneeuwijk.drymatter.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"Multi-environment trial maize, dry matter content","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"","code":"data(\"vaneeuwijk.drymatter\")"},{"path":"/reference/vaneeuwijk.drymatter.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"data frame 168 observations following 5 variables. year year site site, 4 levels variety variety, 6 levels y dry matter percent","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"Percent dry matter given. Site codes soil type classifications:   SS=Southern Sand, CS=Central Sand, NS=Northern Sand, RC=River Clay. data balanced subset data analyzed   van Eeuwijk, Keizer, Bakker (1995b)   Kroonenberg, Basford, Ebskamp (1995). Used permission Fred van Eeuwijk.","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"van Eeuwijk, Fred . Pieter M. Kroonenberg (1998).   Multiplicative Models Interaction Three-Way ANOVA, Applications Plant Breeding   Biometrics, 54, 1315-1333.   https://doi.org/10.2307/2533660","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"Kroonenberg, P.M., Basford, K.E. & Ebskamp, .G.M. (1995).   Three-way cluster component analysis maize variety trials.   Euphytica, 84(1):31-42.   https://doi.org/10.1007/BF01677554 van Eeuwijk, F.., Keizer, L.C.P. & Bakker, J.J. Van Eeuwijk. (1995b).   Linear bilinear models analysis multi-environment trials:    II. application data Dutch Maize Variety Trials   Euphytica, 84(1):9-22.   https://doi.org/10.1007/BF01677552 Hardeo Sahai, Mario M. Ojeda.   Analysis Variance Random Models, Volume 1. Page 261.","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"","code":"if (FALSE) {      library(agridat)   data(vaneeuwijk.drymatter)   dat <- vaneeuwijk.drymatter   dat <- transform(dat, year=factor(year))   dat <- transform(dat, env=factor(paste(year,site)))    libs(HH)   HH::interaction2wt(y ~ year+site+variety,dat,rot=c(90,0),                      x.between=0, y.between=0,                      main=\"vaneeuwijk.drymatter\")       # anova model   m1 <- aov(y ~ variety+env+variety:env, data=dat)   anova(m1) # Similar to VanEeuwijk table 2   m2 <- aov(y ~ year*site*variety, data=dat)   anova(m2) # matches Sahai table 5.5      # variance components model   libs(lme4)   libs(lucid)   m3 <- lmer(y ~ (1|year) + (1|site) + (1|variety) +                (1|year:site) + (1|year:variety) + (1|site:variety),              data=dat)   vc(m3) # matches Sahai page 266   ##          grp        var1 var2    vcov  sdcor   ## year:variety (Intercept) <NA> 0.3187  0.5645   ##    year:site (Intercept) <NA> 7.735   2.781    ## site:variety (Intercept) <NA> 0.03502 0.1871   ##         year (Intercept) <NA> 6.272   2.504    ##      variety (Intercept) <NA> 0.4867  0.6976   ##         site (Intercept) <NA> 6.504   2.55     ##     Residual        <NA> <NA> 0.8885  0.9426    }"},{"path":"/reference/vaneeuwijk.fusarium.html","id":null,"dir":"Reference","previous_headings":"","what":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"Infection wheat varieties Fusarium strains 1990 1993","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"","code":"data(\"vaneeuwijk.fusarium\")"},{"path":"/reference/vaneeuwijk.fusarium.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"data frame 560 observations following 4 variables. year year, 1990-1993 strain strain fusarium gen genotype/variety y","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"Data come Hungary. 20 wheat varieties infected 7   strains Fusarium years 1990-1993.  measured value   rating severity disease due Fusarium head blight,   expressed number 1-100. Three-way interactions varieties 21 23 ones   1992 suffering strain infections.  due incorrect   storage innoculum (strain) rendered incapable   infecting varieties. data subset data analyzed VanEeuwijk et al. 1995. Used permission Fred van Eeuwijk.","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"van Eeuwijk, Fred . Pieter M. Kroonenberg (1998).   Multiplicative Models Interaction Three-Way ANOVA, Applications Plant Breeding   Biometrics, 54, 1315-1333.   https://doi.org/10.2307/2533660","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"F. . van Eeuwijk, . Mesterhazy, Ch. . Kling, P. Ruckenbauer,   L. Saur, H. Burstmayr, M. Lemmens, L. C. P. Keizer, N. Maurin,   C. H. . Snijders. (1995).   Assessing non-specificity resistance wheat head blight caused   inoculation European strains Fusarium culmorum,   F. graminearum F. nivale using multiplicative model   interaction.   Theor Appl Genet. 90(2), 221-8.    https://doi.org/10.1007/BF00222205","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"","code":"if (FALSE) {      library(agridat)   data(vaneeuwijk.fusarium)   dat <- vaneeuwijk.fusarium   dat <- transform(dat, year=factor(year))   dat <- transform(dat, logity=log((y/100)/(1-y/100)))    libs(HH)   position(dat$year) <- c(3,9,14,19)   position(dat$strain) <- c(2,5,8,11,14,17,20)   HH::interaction2wt(logity ~ gen+year+strain,dat,rot=c(90,0),                      x.between=0, y.between=0,                      main=\"vaneeuwijk.fusarium\")     # anova on logit scale. Near match to VanEeuwijk table 6   m1 <- aov(logity ~ gen*strain*year, data=dat)   anova(m1)   ## Response: logity   ##                  Df Sum Sq Mean Sq F value Pr(>F)   ## gen              19 157.55   8.292                  ## strain            6  91.54  15.256                  ## year              3 321.99 107.331                  ## gen:strain      114  34.03   0.299                  ## gen:year         57 140.94   2.473                  ## strain:year      18 236.95  13.164                  ## gen:strain:year 342  93.15   0.272    }"},{"path":"/reference/vaneeuwijk.nematodes.html","id":null,"dir":"Reference","previous_headings":"","what":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"number cysts 11 potato genotypes 5 potato cyst nematode   populations.","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"","code":"data(\"vaneeuwijk.nematodes\")"},{"path":"/reference/vaneeuwijk.nematodes.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"data frame 55 observations following 3 variables. gen potato genotype pop nematode population y number cysts","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"number cysts 11 potato genotypes 5 potato cyst nematode   populations belonging species Globodera pallida.    part larger table . numbers means four   five replicates. Van Eeuwijk used data illustrate fitting generalized linear   model.","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"Fred . van Eeuwijk, (1995).   Multiplicative Interaction Generalized Linear Models.   Biometrics, 51, 1017-1032.   https://doi.org/10.2307/2533001","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"Arntzen, F.K. & van Eeuwijk (1992).   Variation resistance level potato genotypes virulence level   potato cyst nematode populations.   Euphytica, 62, 135-143.   https://doi.org/10.1007/BF00037939","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"","code":"if (FALSE) {  library(agridat) data(vaneeuwijk.nematodes) dat <- vaneeuwijk.nematodes  # show non-normality op <- par(mfrow=c(2,1), mar=c(5,4,3,2)) boxplot(y ~ pop, data=dat, las=2,         ylab=\"number of cysts\") title(\"vaneeuwijk.nematodes - cysts per nematode pop\") boxplot(y ~ gen, data=dat, las=2) title(\"vaneeuwijk.nematodes - cysts per potato\") par(op)    # normal distribution   lm1 <- lm(y ~ gen + pop, data=dat)    # poisson distribution   glm1 <- glm(y ~ gen+pop,data=dat,family=quasipoisson(link=log))   anova(glm1)    libs(gnm)    # main-effects non-interaction model   gnm0 <- gnm(y ~ pop + gen, data=dat,               family=quasipoisson(link=log))   # one interaction   gnm1 <- gnm(y ~ pop + gen + Mult(pop,gen,inst=1), data=dat,               family=quasipoisson(link=log))   # two interactions   gnm2 <- gnm(y ~ pop + gen + Mult(pop,gen,inst=1) + Mult(pop,gen,inst=2),               data=dat,               family=quasipoisson(link=log))    # anova(gnm0, gnm1, gnm2, test=\"F\")   # only 2, not 3 axes needed    # match vaneeuwijk table 2   # anova(gnm2)   ##                          Df Deviance Resid. Df Resid. Dev   ## NULL                                        54     8947.4   ## pop                       4    690.6        50     8256.8   ## gen                      10   7111.4        40     1145.4   ## Mult(pop, gen, inst = 1) 13    716.0        27      429.4   ## Mult(pop, gen, inst = 2) 11    351.1        16       78.3    # compare residual qq plots from models   op <- par(mfrow=c(2,2))   plot(lm1, which=2, main=\"LM\")   plot(glm1, which=2, main=\"GLM\")   plot(gnm0, which=2, main=\"GNM, no interaction\")   plot(gnm2, which=2, main=\"GNM, 2 interactions\")   par(op)    # extract interaction-term coefficients, make a biplot   pops <- pickCoef(gnm2, \"[.]pop\")   gens <- pickCoef(gnm2, \"[.]gen\")   coefs <- coef(gnm2)   A <- matrix(coefs[pops], nc = 2)   B <- matrix(coefs[gens], nc = 2)   A2=scale(A)   B2=scale(B)   rownames(A2) <- levels(dat$pop)   rownames(B2) <- levels(dat$gen)   # near-match with vaneeuwijk figure 1   biplot(A2,B2, expand=2.5,xlim=c(-2,2),ylim=c(-2,2),          main=\"vaneeuwijk.nematodes - GAMMI biplot\")  }"},{"path":"/reference/vargas.txe.html","id":null,"dir":"Reference","previous_headings":"","what":"Treatment x environment interaction in agronomy trials — vargas.txe","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"Treatment x environment interaction agronomy trials","code":""},{"path":"/reference/vargas.txe.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"","code":"data(\"vargas.txe.covs\") data(\"vargas.txe.yield\")"},{"path":"/reference/vargas.txe.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"'vargas.txe.covs' data 10 years measurements 28   environmental covariates: year year MTD mean maximum temperature December MTJ mean maximum temperature January MTF mean maximum temperature February MTM mean maximum temperature March MTA mean maximum temperature April mTD mean minimum temperature December mTJ mean minimum temperature January mTF mean minimum temperature February mTM mean minimum temperature March mTA mean minimum temperature April mTUD mean minimum temperature December mTUJ mean minimum temperature January mTUF mean minimum temperature February mTUM mean minimum temperature March mTUA mean minimum temperature April PRD total monthly precipitation December PRJ total monthly precipitation Jan PRF total monthly precipitation Feb PRM total monthly precipitation Mar SHD sun hours per day Dec SHJ sun hours per day Jan SHF sun hours per day Feb EVD total monthly evaporation Dec EVJ total monthly evaporation Jan EVF total monthly evaporation Feb EVM total monthly evaporation Mar EVA total monthly evaporation Apr 'vargas.txe.yield' dataframe contains 240 observations   three variables year Year trt Treatment. See details section yield Grain yield, kg/ha","code":""},{"path":"/reference/vargas.txe.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"treatment names indicate: Used permission Jose Crossa.","code":""},{"path":"/reference/vargas.txe.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"Vargas, Mateo Crossa, Jose van Eeuwijk, Fred Sayre,   Kenneth D. Reynolds, Matthew P. (2001).   Interpreting Treatment x Environment Interaction Agronomy Trials.   Agron. J., 93, 949-960.  Table A1, A3.   https://doi.org/10.2134/agronj2001.934949x","code":""},{"path":"/reference/vargas.txe.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"","code":"if (FALSE) {      library(agridat)   data(vargas.txe.covs)   data(vargas.txe.yield)      libs(reshape2)   libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   Z <- vargas.txe.yield   Z <- acast(Z, year ~ trt, value.var='yield')   levelplot(Z, col.regions=redblue,             main=\"vargas.txe.yield\", xlab=\"year\", ylab=\"treatment\",             scales=list(x=list(rot=90)))      # Double-centered like AMMI   Z <- sweep(Z, 1, rowMeans(Z))   Z <- sweep(Z, 2, colMeans(Z))   # Vargas figure 1   biplot(prcomp(Z, scale.=FALSE), main=\"vargas.txe.yield\")    # Now, PLS relating the two matrices   U <- vargas.txe.covs   U <- scale(U) # Standardized covariates   libs(pls)   m1 <- plsr(Z~U)   # Vargas Fig 2, flipped vertical/horizontal   biplot(m1, which=\"x\", var.axes=TRUE)  }"},{"path":"/reference/vargas.wheat1.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"Yield Durum wheat, 7 genotypes, 6 years, 16 genotypic variates   16 environment variates.","code":""},{"path":"/reference/vargas.wheat1.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"","code":"data(\"vargas.wheat1.covs\") data(\"vargas.wheat1.traits\")"},{"path":"/reference/vargas.wheat1.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"vargas.wheat1.covs dataframe 6 observations following 17 variables. year year, 1990-1995 MTD Mean daily max temperature December, deg C MTJ Mean max January MTF Mean max February MTM Mean max March mTD Mean daily minimum temperature December, deg C mTJ Mean min January mTF Mean min February mTM Mean min March PRD Monthly precipitation December, mm PRJ Precipitation January PRF Precipitation February PRM Precipitation March SHD Sun hours December SHJ Sun hours January SHF Sun hours February SHM Sun hours March vargas.wheat1.traits dataframe 126 observations following 19 variables. year year, 1990-1995 rep replicate, 3 levels gen genotype, 7 levels yield yield, kg/ha ANT anthesis, days emergence MAT maturity, days emergence GFI grainfill, MAT-ANT PLH plant height, cm BIO biomass ground, kg/ha HID harvest index STW straw yield, kg/ha NSM spikes / m^2 NGM grains / m^2 NGS grains per spike TKW thousand kernel weight, g WTI weight per tiller, g SGW spike grain weight, g VGR vegetative growth rate, kg/ha/day, STW/ANT KGR kernel growth rate, mg/kernel/day","code":""},{"path":"/reference/vargas.wheat1.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"Conducted Ciudad Obregon, Mexico.","code":""},{"path":"/reference/vargas.wheat1.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"Mateo Vargas Jose Crossa Ken Sayre Matthew Renolds   Martha E Ramirez Mike Talbot, 1998.   Interpreting Genotype x Environment Interaction Wheat   Partial Least Squares Regression.   Crop Science, 38, 679-689.   https://doi.org/10.2135/cropsci1998.0011183X003800030010x Data provided Jose Crossa.","code":""},{"path":"/reference/vargas.wheat1.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"","code":"if (FALSE) {  library(agridat)   data(vargas.wheat1.covs)   data(vargas.wheat1.traits)    libs(pls)   libs(reshape2)    # Yield as a function of non-yield traits   Y0 <- vargas.wheat1.traits[,c('gen','rep','year','yield')]   Y0 <- acast(Y0, gen ~ year, value.var='yield', fun=mean)   Y0 <- sweep(Y0, 1, rowMeans(Y0))   Y0 <- sweep(Y0, 2, colMeans(Y0)) # GxE residuals   Y1 <- scale(Y0) # scaled columns   X1 <- vargas.wheat1.traits[, -4] # omit yield   X1 <- aggregate(cbind(ANT,MAT,GFI,PLH,BIO,HID,STW,NSM,NGM,                         NGS,TKW,WTI,SGW,VGR,KGR) ~ gen, data=X1, FUN=mean)   rownames(X1) <- X1$gen   X1$gen <- NULL   X1 <- scale(X1) # scaled columns   m1 <- plsr(Y1~X1)   loadings(m1)[,1,drop=FALSE] # X loadings in Table 1 of Vargas    biplot(m1, cex=.5, which=\"x\", var.axes=TRUE,          main=\"vargas.wheat1 - gen ~ trait\") # Vargas figure 2a    # Yield as a function of environment covariates   Y2 <- t(Y0)   X2 <- vargas.wheat1.covs   rownames(X2) <- X2$year   X2$year <- NULL   Y2 <- scale(Y2)   X2 <- scale(X2)    m2 <- plsr(Y2~X2)   loadings(m2)[,1,drop=FALSE] # X loadings in Table 2 of Vargas }"},{"path":"/reference/vargas.wheat2.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"yield 8 wheat genotypes measured 21 low-humidity   environments.  environment 13 covariates recorded.","code":""},{"path":"/reference/vargas.wheat2.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"","code":"data(\"vargas.wheat2.covs\") data(\"vargas.wheat2.yield\")"},{"path":"/reference/vargas.wheat2.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"'vargas.wheat2.covs' data frame 21 observations following 14 variables. env environment CYC length growth cycle days mTC mean daily minimum temperature degrees Celsius MTC mean daily maximum temperature SHC sun hours per day mTV mean daily minimum temp vegetative stage MTV mean daily maximum temp vegetative stage SHV sun hours per day vegetative stage mTS mean daily minimum temp spike growth stage MTS mean daily maximum temp spike growth stage SHS sun hours per day spike growth stage mTG mean daily minimum temp grainfill stage MTG mean daily maximum temp grainfill stage SHG sun hours per day grainfill stage 'vargas.wheat2.yield' data frame 168 observations following 3 variables. env environment gen genotype yield yield (kg/ha)","code":""},{"path":"/reference/vargas.wheat2.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"Grain yields (kg/ha) 8 wheat genotypes 21 low-humidity   environments grown 1990-1994. data environment-centered   genotype-centered. rows columns GxE matrix   mean zero. locations experiments :","code":""},{"path":"/reference/vargas.wheat2.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"Mateo Vargas Jose Crossa Ken Sayre Matthew Renolds   Martha E Ramirez Mike Talbot, 1998.   Interpreting Genotype x Environment Interaction Wheat   Partial Least Squares Regression, Crop Science, 38, 679--689.   https://doi.org/10.2135/cropsci1998.0011183X003800030010x Data provided Jose Crossa.","code":""},{"path":"/reference/vargas.wheat2.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"","code":"if (FALSE) {      library(agridat)   libs(pls,reshape2)      data(vargas.wheat2.covs)   datc <- vargas.wheat2.covs    data(vargas.wheat2.yield)   daty <- vargas.wheat2.yield    # Cast to matrix   daty <- acast(daty, env ~ gen, value.var='yield')   rownames(datc) <- datc$env   datc$env <- NULL      # The pls package centers, but does not (by default) use scaled covariates   # Vargas says you should   # daty <- scale(daty)   datc <- scale(datc)    m2 <- plsr(daty ~ datc)    # Plot predicted vs observed for each genotype using all components   plot(m2)    # Loadings   # plot(m2, \"loadings\", xaxt='n')   # axis(1, at=1:ncol(datc), labels=colnames(datc), las=2)    # Biplots   biplot(m2, cex=.5, which=\"y\", var.axes=TRUE,          main=\"vargas.wheat2 - daty ~ datc\") # Vargas figure 2a   biplot(m2, cex=.5, which=\"x\", var.axes=TRUE) # Vectors form figure 2 b   # biplot(m2, cex=.5, which=\"scores\", var.axes=TRUE)   # biplot(m2, cex=.5, which=\"loadings\", var.axes=TRUE)    }"},{"path":"/reference/verbyla.lupin.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"Yield 9 varieties lupin different planting densities across   2 years multiple locations.","code":""},{"path":"/reference/verbyla.lupin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"gen genotype, 9 varieties site site, 11 levels rep rep, 2-3 levels rate seeding rate plants/m^2 row row col column serp factor 4 levels serpentine seeding effect linrow centered row position numeric variate (row-8.5)/10 lincol centered column position numeric variate (col-3.5) linrate linear effect seedrate, scaled (seedrate-41.92958)/10 yield yield tons/hectare year year, 1991-1992 loc location","code":""},{"path":"/reference/verbyla.lupin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"Nine varieties lupin tested yield response plant density   11 sites.  target density 1991 10, 20, ..., 60 plants per   m^2, 1992 20, 30, ..., 70 plants per m^2. Plot dimensions given. variety Myallie grown 1992. site 2 reps 1991 3 reps   1992.  rep laid factorial RCB design; one randomization   used sites 1991 one (different) randomization used   sites 1992.  (confirmed principal   investigator.) 1991 Mt. Barker location, data columns   5 6 discarded due problems weeds. Variety 'Myallie' called '84L:439' Verbyla 1997. year release varieties  Data retrieved Oct 2010 https://www.blackwellpublishers.co.uk/rss.   (longer available). Used permission Blackwell Publishing.","code":""},{"path":"/reference/verbyla.lupin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"Arunas P. Verbyla Brian R. Cullis Michael G. Kenward   Sue J. Welham, (1999).   analysis designed experiments longitudinal data using   smoothing splines.    Appl. Statist., 48, 269--311.   https://doi.org/10.1111/1467-9876.00154 Arunas P. Verbyla Brian R. Cullis Michael G. Kenward   Sue J. Welham, (1997).   analysis designed experiments longitudinal data using   smoothing splines.   University Adelaide, Department Statistics, Research Report   97/4.   https://https://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.56.808","code":""},{"path":"/reference/verbyla.lupin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"","code":"if (FALSE) {      library(agridat)   data(verbyla.lupin)   dat <- verbyla.lupin    # The same RCB randomization was used at all sites in each year   libs(desplot)   desplot(dat, gen~col+row|site,           out1=rep, num=rate,           # aspect unknown           main=\"verbyla.lupin - experiment design\")     # Figure 3 of Verbyla   libs(lattice)   foo <- xyplot(yield ~ rate|loc*gen, data=dat, subset=year==92,                 type=c('p','smooth'), cex=.5,                 main=\"verbyla.lupin: 1992 yield response curves\",                 xlab=\"Seed rate (plants/m^2)\",                 ylab=\"Yield (tons/ha)\",                 strip=strip.custom(par.strip.text=list(cex=.7)))    libs(latticeExtra) # for useOuterStrips   useOuterStrips(foo,                  strip=strip.custom(par.strip.text=list(cex=.7)),                  strip.left=strip.custom(par.strip.text=list(cex=.7)))     # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)          # We try to reproduce the analysis of Verbyla 1999.     # May not be exactly the same, but is pretty close.        # Check nlevels for size of random-coefficient structures     # length(with(dat, table(gen)))      # 9 varieties for RC1     # length(with(dat, table(gen,site))) # 99 site:gen combinations for RC2          # Make row and col into factors     dat <- transform(dat, colf=factor(col), rowf=factor(row))     # sort for asreml     dat <- dat[order(dat$site, dat$rowf, dat$colf),]          # Make site names more useful for plots     # dat <- transform(dat, site=factor(paste0(year,\".\",substring(loc,1,4))))          # Initial model from top of Verbyla table 9.     m0 <- asreml(yield ~ 1                  + site                  + linrate                  + site:linrate,                  data = dat,                  random = ~ spl(rate)                  + dev(rate)                  + site:spl(rate)                  + site:dev(rate)                  + str(~gen+gen:linrate, ~us(2):id(9)) # RC1                  + gen:spl(rate)                  + gen:dev(rate)                  + str(~site:gen+site:gen:linrate, ~us(2):id(99)) # RC2                  + site:gen:spl(rate)                  + site:gen:dev(rate),                  residual = ~ dsum( ~ ar1(rowf):ar1(colf)|site) # Spatial AR1 x AR1                  )     m0 <- update(m0)     m0 <- update(m0)     m0 <- update(m0)     m0 <- update(m0)     m0 <- update(m0)      # Variograms match Verbyla 1999 figure 7 (scale slightly different)     plot(varioGram(m0), xlim=c(1:19), zlim=c(0,2),          main=\"verbyla.lupin - variogram by site\")          # Sequence of models in Verbyla 1999 table 10     m1 <- update(m0, fixed= ~ .                  + at(site, c(2,5,6,8,9,10)):lincol                  + at(site, c(3,5,7,8)):linrow                  + at(site, c(2,3,5,7,8,9,11)):serp                , random = ~ .                  + at(site, c(3,6,7,9)):rowf                  + at(site, c(1,2,3,9,10)):colf                  + at(site, c(5,7,8,10)):units)     m1 <- update(m1)          m2 <- update(m1,                  random = ~ .                  - site:gen:spl(rate) - site:gen:dev(rate))          m3 <- update(m2,                  random = ~ .                  - site:dev(rate) - gen:dev(rate))          m4 <- update(m3,                  random = ~ .                  - dev(rate))          m5 <- update(m4,                  random = ~ .                  - at(site, c(5,7,8,10)):units + at(site, c(5,7,8)):units)          # Variance components are a pretty good match to Verbyla 1997, table 15     libs(lucid)     vc(m5)     .001004/sqrt(.005446*.0003662) # .711 correlation for RC1     .00175/sqrt(.01881*.000167) # .987 correlation for RC2          # Matches Verbyla 1999 figure 5     plot(varioGram(m5),          main=\"verbyla.lupin - final model variograms\",          xlim=c(1:19), zlim=c(0,1.5))   }    }"},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — vishnaadevi.rice.uniformity","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"Uniformity trial rice Madurai, India.","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"","code":"data(\"vishnaadevi.rice.uniformity\")"},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"data frame 288 observations following 3 variables. row row ordinate col column ordinate yield yield per plot, grams","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"uniformity trial rice raised 2017 late samba season near   Madurai, India. Note: clear outlier value '685'.   outlier included, calculated value CV matches   value Vishnaadevi et al.   remove outlier, CV smaller value   paper.   means outlier value simple typo   publication, actual value original data. Field width: 12 columns x 1m = 12 m Field length: 24 rows x 1m = 24m","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"Vishnaadevi, S.; K. Prabakaran, E. Subramanian, P. Arunachalam. (2019).   Determination fertility gradient direction optimum plot shape paddy crop Madurai District.   Green Farming, 10, 155-159.   https://www.researchgate.net/publication/333892867","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"None","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"","code":"if (FALSE) {   library(agridat)   data(vishnaadevi.rice.uniformity)   dat <-vishnaadevi.rice.uniformity    # CV in Table 2 for 1x1 is reported as 2.8   # sd(dat$yield)/mean(dat$yield) = .0277   # If we remove the outlier yield 685, then we calculate .0256   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=24/12,           main=\"vishnaadevi.rice.uniformity\") }"},{"path":"/reference/vold.longterm.html","id":null,"dir":"Reference","previous_headings":"","what":"Long-term barley yields at different fertilizer levels — vold.longterm","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Long-term barley yields different fertilizer levels","code":""},{"path":"/reference/vold.longterm.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"","code":"data(\"vold.longterm\")"},{"path":"/reference/vold.longterm.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"data frame 76 observations following 3 variables. year year nitro nitrogen fertilizer, grams/m^2 yield yield, grams/m^2","code":""},{"path":"/reference/vold.longterm.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Trials conducted Osaker, Norway.   Nitrogen fertilizer amounts increased twenty percent 1978. Vold (1998) fit Michaelis-Menten type equation different   maximum year decreasing covariate non-fertilizer   nitrogen. Miguez used non-linear mixed effects model asymptotic curve.","code":""},{"path":"/reference/vold.longterm.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Arild Vold (1998).   generalization ordinary yield response functions.   Ecological modelling, 108, 227-236.   https://doi.org/10.1016/S0304-3800(98)00031-3","code":""},{"path":"/reference/vold.longterm.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Fernando E. Miguez (2008).   Using Non-Linear Mixed Models Agricultural Data.","code":""},{"path":"/reference/vold.longterm.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"","code":"if (FALSE) {      library(agridat)   data(vold.longterm)   dat <- vold.longterm      libs(lattice)   foo1 <- xyplot(yield ~ nitro | factor(year), data = dat,                  as.table=TRUE, type = \"o\",                  main=list(\"vold.longterm\", cex=1.5),                  xlab = list(\"N fertilizer\",cex=1.5,font=4),                  ylab = list(\"Yield\", cex=1.5))       # Long term trend shows decreasing yields   xyplot(yield ~ year , data = dat, group=nitro, type='o',          main=\"vold.longterm - yield level by nitrogen\",          auto.key=list(columns=4))     if(0){   # Global model   m1.nls <- nls(yield ~ SSasymp(nitro, max, int, lograte), data=dat)   summary(m1.nls)   libs(MASS) # for 'confint'   confint(m1.nls)      # Raw data plus global model.  Year variation not modeled.   pdat <- data.frame(nitro=seq(0,14,0.5))   pdat$pred <- predict(m1.nls, newdata=pdat)     libs(latticeExtra) # for layers     foo1 + xyplot(pred ~ nitro , data = pdat,                   as.table=TRUE, type='l', col='red', lwd=2)   }    # Separate fit for each year.  Overfitting with 3x19=57 params.   libs(nlme)   m2.lis <- nlsList(yield ~ SSasymp(nitro,max,int,lograte) | year, data=dat)   plot(intervals(m2.lis),layout = c(3,1),        main=\"vold.longterm\") # lograte might be same for each year     # Fixed overall asymptotic model, plus random deviations for each year   # Simpler code, but less clear about what model is fit: m3.lme <- nlme(m2.lis)   libs(nlme)   m3.lme <- nlme(yield ~ SSasymp(nitro, max, int, lograte), data=dat,                  groups = ~ year,                  fixed = list(max~1, int~1, lograte~1),                  random= max + int + lograte ~ 1,                  start= c(max=300, int=100, rate=-2))      ## # Fixed effects are similar for the nls/lme models   ## coef(m1.nls)   ## fixef(m3.lme)   ## # Random effects are normally distributed   ## qqnorm(m3.lme, ~ ranef(.),col=\"black\")   ## # Note the trend in intercept effects over time   ## plot(ranef(m3.lme),layout=c(3,1))      ## # Correlation between int,lograte int,max may not be needed   ## intervals(m3.lme,which=\"var-cov\")   ## pairs(m3.lme,pch=19,col=\"black\")      ## # Model with int uncorrelated with max,lograte.  AIC is worse.   ## # fit4.lm3 <- update(m3.lme, random=pdBlocked(list(max+lograte~1,int ~ 1)))   ## # intervals(fit4.lm3, which=\"var-cov\")   ## # anova(m3.lme, fit4.lm3)      # Plot the random-effect model.  Excellent fit with few parameters.   pdat2 <- expand.grid(year=1970:1988, nitro=seq(0,15,length=50))   pdat2$pred <- predict(m3.lme, new=pdat2)   pdat2$predf <- predict(m3.lme, new=pdat2, level=0)   foo1 <- update(foo1, type='p',                  key=simpleKey(c(\"Observed\",\"Fixed\",\"Random\"),                                col=c(\"blue\",\"red\",\"darkgreen\"),                                points=FALSE, columns=3))   libs(latticeExtra)   foo2 <- xyplot(pred~nitro|year, data=pdat2, type='l', col=\"darkgreen\", lwd=2)   foo3 <- xyplot(predf~nitro|year, data=pdat2, type='l', col=\"red\",lwd=1)   foo1 + foo2 + foo3       ## # Income is maximized at about 15   ## pdat2 <- transform(pdat2, income = predf*2 - 7*nitro)   ## with(pdat2, xyplot(income~nitro)) }"},{"path":"/reference/vsn.lupin3.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"Early generation lupin trial 3 sites, 330 test lines, 6 check lines.","code":""},{"path":"/reference/vsn.lupin3.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"data frame 1236 observations following 5 variables. site site, levels S1 S2 S3 col column row row gen genotype yield yield","code":""},{"path":"/reference/vsn.lupin3.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"early-stage multi-environment trial, 6 check lines 300   test lines.  6 check lines replicated environment. Used permission Arthur Gilmour, Brian Cullis, Robin Thompson.","code":""},{"path":"/reference/vsn.lupin3.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"Multi-Environment Trials - Lupins.   https://www.vsni.co.uk/software/asreml/htmlhelp/asreml/xlupin.htm","code":""},{"path":"/reference/vsn.lupin3.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"","code":"if (FALSE) {      library(agridat)   data(vsn.lupin3)   dat <- vsn.lupin3      # Split gen into check/test, make factors   dat <- within(dat, {     check <- ifelse(gen>336, 0, gen)     check <- ifelse(check<7, check, 7)     check <- factor(check)     test <- factor(ifelse(gen>6 & gen<337, gen, 0))     gen=factor(gen)   })    libs(desplot)   desplot(dat, yield~ col*row|site,           # midpoint=\"midrange\",           # aspect unknown           main=\"vsn.lupin3 - yield\")   # Site 1 & 2 used same randomization   desplot(dat, check~ col*row|site,           main=\"vsn.lupin3: check plot placement\")     if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)           # Single-site analyses suggested random row term for site 3,     # random column terms for all sites,     # AR1 was unnecessary for the col dimension of site 3     dat <- transform(dat, colf=factor(col), rowf=factor(row))     dat <- dat[order(dat$site, dat$colf, dat$rowf),] # Sort for asreml     m1 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf + test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)                                    ) )     m1$loglik     ## [1] -314.2616          lucid::vc(m1)     ##                      effect component std.error z.ratio constr     ##  at(site, S1):colf!colf.var   0.6228   0.4284       1.5    pos     ##  at(site, S2):colf!colf.var   0.159    0.1139       1.4    pos     ##  at(site, S3):colf!colf.var   0.04832  0.02618      1.8    pos     ##  at(site, S3):rowf!rowf.var   0.0235   0.008483     2.8    pos     ##               test!test.var   0.1031   0.01468      7      pos     ##            site_S1!variance   2.771    0.314        8.8    pos     ##            site_S1!colf.cor   0.1959   0.05375      3.6  uncon     ##            site_S1!rowf.cor   0.6503   0.03873     17    uncon     ##            site_S2!variance   0.9926   0.1079       9.2    pos     ##            site_S2!colf.cor   0.2868   0.05246      5.5  uncon     ##            site_S2!rowf.cor   0.5744   0.0421      14    uncon     ##            site_S3!variance   0.1205   0.01875      6.4    pos     ##            site_S3!rowf.cor   0.6394   0.06323     10    uncon          # Add site:test     m2 <- update(m1, random=~. + site:test)     m2$loglik     ## [1] -310.8794          # CORUH structure on the site component of site:test     m3 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf + corh(site):test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)  ))     m3$loglik     ## [1] -288.4837          # Unstructured genetic variance matrix     m4 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf + us(site):test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)  ))     m4$loglik     ## [1] -286.8239        # Note that a 3x3 unstructured matrix can be written LL'+Psi with 1 factor L     # Explicitly fit the factor analytic model     m5 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf                  + fa(site,1, init=c(.7,.1,.1,.5,.3,.2)):test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)  ))     m5$loglik # Same as m4     ## [1] -286.8484          # Model 4, Unstructured (symmetric) genetic variance matrix     un <- diag(3)     un[upper.tri(un,TRUE)] <- m4$vparameters[5:10]     round(un+t(un)-diag(diag(un)),3)     ##       [,1]  [,2]  [,3]     ## [1,] 0.992 0.158 0.132     ## [2,] 0.158 0.073 0.078     ## [3,] 0.132 0.078 0.122          # Model 5, FA matrix = LL'+Psi.  Not quite the same as unstructured,     # since the FA model fixes site 2 variance at 0.     psi <- diag(m5$vparameters[5:7])     lam <- matrix(m5$vparameters[8:10], ncol=1)     round(tcrossprod(lam,lam)+psi,3)     ##       [,1]  [,2]  [,3]     ## [1,] 0.991 0.156 0.133     ## [2,] 0.156 0.092 0.078     ## [3,] 0.133 0.078 0.122   }    }"},{"path":"/reference/wallace.iowaland.html","id":null,"dir":"Reference","previous_headings":"","what":"Iowa farmland values by county in 1925 — wallace.iowaland","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"Iowa farmland values county 1925","code":""},{"path":"/reference/wallace.iowaland.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"","code":"data(\"wallace.iowaland\")"},{"path":"/reference/wallace.iowaland.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"data frame 99 observations following 10 variables. county county factor, 99 levels fips FIPS code (state+county) lat latitude long longitude yield average corn yield per acre (bu) corn percent land corn grain percent land small grains untillable percent land untillable fedval land value (excluding buildings) per acre, 1925 federal census stval land value (excluding buildings) per acre, 1925 state census","code":""},{"path":"/reference/wallace.iowaland.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"None.","code":""},{"path":"/reference/wallace.iowaland.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"H.. Wallace (1926). Comparative Farm-Land Values Iowa.   Journal Land & Public Utility Economics, 2, 385-392.   Page 387-388.   https://doi.org/10.2307/3138610","code":""},{"path":"/reference/wallace.iowaland.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"Larry Winner. Spatial Data Analysis.   https://www.stat.ufl.edu/~winner/data/iowaland.txt","code":""},{"path":"/reference/wallace.iowaland.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"","code":"library(agridat) data(wallace.iowaland) dat <- wallace.iowaland  # Interesting trends involving latitude libs(lattice) splom(~dat[,-c(1:2)], type=c('p','smooth'), lwd=2, main=\"wallace.iowaland\")   # Means. Similar to Wallace table 1 apply(dat[, c('yield','corn','grain','untillable','fedval')], 2, mean) #>      yield       corn      grain untillable     fedval  #>   39.11111   32.47475   21.55556   18.84848  118.67677   # Correlations.  Similar to Wallace table 2 round(cor(dat[, c('yield','corn','grain','untillable','fedval')]),2) #>            yield  corn grain untillable fedval #> yield       1.00  0.30  0.27      -0.16   0.61 #> corn        0.30  1.00  0.61      -0.82   0.81 #> grain       0.27  0.61  1.00      -0.59   0.62 #> untillable -0.16 -0.82 -0.59       1.00  -0.69 #> fedval      0.61  0.81  0.62      -0.69   1.00  m1 <- lm(fedval ~ yield + corn + grain + untillable, dat) summary(m1) # estimates similar to Wallace, top of p. 389 #>  #> Call: #> lm(formula = fedval ~ yield + corn + grain + untillable, data = dat) #>  #> Residuals: #>     Min      1Q  Median      3Q     Max  #> -36.392  -7.797  -0.110   6.068  31.778  #>  #> Coefficients: #>             Estimate Std. Error t value Pr(>|t|)     #> (Intercept) -64.7071    17.3420  -3.731 0.000326 *** #> yield         3.1488     0.3717   8.472 3.24e-13 *** #> corn          1.8175     0.3090   5.881 6.20e-08 *** #> grain         0.5394     0.2566   2.102 0.038229 *   #> untillable   -0.5527     0.2697  -2.049 0.043270 *   #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Residual standard error: 11.61 on 94 degrees of freedom #> Multiple R-squared:  0.819,\tAdjusted R-squared:  0.8113  #> F-statistic: 106.3 on 4 and 94 DF,  p-value: < 2.2e-16 #>   # Choropleth map libs(maps) data(county.fips) dat <- transform(dat, polnm = paste0('iowa,',county)) # polnm example: iowa,adair  libs(\"latticeExtra\") # for mapplot redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) mapplot(polnm~fedval , data=dat, colramp=redblue,         main=\"wallace.iowaland - Federal land values\",         xlab=\"Land value, dollars per acre\",         scales=list(draw=FALSE),         map=map('county', 'iowa', plot=FALSE,           fill=TRUE, projection=\"mercator\")) #> Warning: 6 unmatched regions: iowa,blackhawk, iowa,buenavista, iowa,cerrogordo, iowa,d...."},{"path":"/reference/walsh.cottonprice.html","id":null,"dir":"Reference","previous_headings":"","what":"Acres and price of cotton 1910-1943 — walsh.cottonprice","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"Acres price cotton 1910-1943","code":""},{"path":"/reference/walsh.cottonprice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"data frame 34 observations following 9 variables. year year, numeric 1910-1943 acres acres cototn (1000s) cotton price per pound (cents) previous year cottonseed price per ton (dollars) previous year combined cotton price/pound + 1.857 x cottonseed price/pound (cents) index price index, 1911-1914=100 adjcotton adjusted cotton price per pound (cents) previous year adjcottonseed adjusted cottonseed price per ton (dollars) previous year adjcombined adjusted combined price/pound (cents)","code":""},{"path":"/reference/walsh.cottonprice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"'index' price index farm commodities.","code":""},{"path":"/reference/walsh.cottonprice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"R.M. Walsh (1944).   Response Price Production Cotton Cottonseed,   Journal Farm Economics, 26, 359-372.   https://doi.org/10.2307/1232237","code":""},{"path":"/reference/walsh.cottonprice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"","code":"if (FALSE) {  library(agridat)  data(walsh.cottonprice) dat <- walsh.cottonprice  dat <- transform(dat, acres=acres/1000) # convert to million acres  percentchg <- function(x){ # percent change from previous to current   ix <- 2:(nrow(dat))   c(NA, (x[ix]-x[ix-1])/x[ix-1]) }  # Compare percent change in acres with percent change in previous price # using constant dollars dat <- transform(dat, chga = percentchg(acres), chgp = percentchg(adjcombined))  with(dat, cor(chga, chgp, use='pair')) # .501 correlation libs(lattice) xyplot(chga~chgp, dat, type=c('p','r'),        main=\"walsh.cottonprice\",        xlab=\"Percent change in previous price\", ylab=\"Percent change in acres\") }"},{"path":"/reference/wassom.brome.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of bromegrass — wassom.brome.uniformity","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"Uniformity trials bromegrass Ames, Iowa, 1950-1951.","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"","code":"data(\"wassom.brome.uniformity\")"},{"path":"/reference/wassom.brome.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"data frame 1296 observations following 3 variables. expt experiment row row col column yield forage yield, pounds","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"Experiments conducted Ames, Iowa.  response variable   forage yield pounds green weight. Optimum plot size estimated 3.5 x 7.5 feet. Wassom Kalton used two different methods estimate optimum plot   size.   1. Relative efficiency different plot sizes.   2. Regression log variance yield vs log plot size. three Experiments: Experiment E1 broadcast seeded, harvested 1950. Experiment E2 row planted, harvested 1950. Experiment E3 broadcast seeded, harvested 1951.  field contained   mixture alfalfa brome equal proportions. plot 3.5 ft x 4 ft, orientation plot   clear. Field width: 36 plots Field length: 36 plots","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"Wassom R.R. Kalton. (1953).   Estimations Optimum Plot Size Using Data Bromegrass Uniformity   Trials. Agricultural Experiment Station, Iowa State College, Bulletin   396, page 314-319.   https://dr.lib.iastate.edu/handle/20.500.12876/62735   https://babel.hathitrust.org/cgi/pt?id=uiug.30112019570701&view=1up&seq=26&skin=2021","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"","code":"if (FALSE) {    library(agridat)   data(wassom.brome.uniformity)   dat <- wassom.brome.uniformity    libs(desplot)   desplot(dat, yield~col*row|expt,           flip=TRUE, aspect=1, # approximate aspect           main=\"wassom.brome.uniformity\")    }"},{"path":"/reference/waynick.soil.html","id":null,"dir":"Reference","previous_headings":"","what":"Soil nitrogen and carbon in two fields — waynick.soil","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"Soil nitrogen carbon two fields","code":""},{"path":"/reference/waynick.soil.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"data frame 200 observations following 6 variables. field field name, 2 levels sample sample number x x ordinate y y ordinate nitro nitrogen content, percent carbon carbon content, percent","code":""},{"path":"/reference/waynick.soil.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"Two fields studied, one University Farm Davis,   near Oakley.  Davis field silty clay loam, Oakley field   blow sand.","code":""},{"path":"/reference/waynick.soil.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"Waynick, Dean, Sharp, Leslie. (1918).   Variability soils significance past future soil investigations, -II.   University California press.   https://archive.org/details/variabilityinsoi45wayn","code":""},{"path":"/reference/waynick.soil.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"","code":"if (FALSE) {  library(agridat) data(waynick.soil) dat <- waynick.soil  # Strong relationship between N,C libs(lattice) xyplot(nitro~carbon|field, data=dat, main=\"waynick.soil\")  # Spatial plot libs(sp, gstat) d1 <- subset(dat, field==\"Davis\") d2 <- subset(dat, field==\"Oakley\") coordinates(d1) <- data.frame(x=d1$x, y=d1$y) coordinates(d2) <- data.frame(x=d2$x, y=d2$y) spplot(d1, zcol = \"nitro\", cuts=8, cex = 1.6,        main = \"waynick.soil - Davis field - nitrogen\",        col.regions =  bpy.colors(8), key.space = \"right\")  # Variogram v1 <- gstat::variogram(nitro~1, data=d1) plot(v1, main=\"waynick.soil - Davis field - nitrogen\") # Maybe hasn't reached sill  }"},{"path":"/reference/wedderburn.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"Percent leaf area affected leaf blotch 10 varieties barley   9 sites.","code":""},{"path":"/reference/wedderburn.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"data frame 90 observations following 3 variables. y Percent leaf area affected, 0-100. site Site factor, 9 levels gen Variety factor, 10 levels","code":""},{"path":"/reference/wedderburn.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"Incidence Rhynchosporium secalis (leaf blotch) leaves   10 varieties barley grown 9 sites 1965.","code":""},{"path":"/reference/wedderburn.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"Wedderburn, R W M (1974).   Quasilikelihood functions, generalized linear models   Gauss-Newton method.   Biometrika, 61, 439--47.   https://doi.org/10.2307/2334725 Wedderburn credits original data unpublished thesis   J. F. Jenkyn.","code":""},{"path":"/reference/wedderburn.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"McCullagh, P Nelder, J (1989).   Generalized Linear Models (2nd ed). R. B. Millar.   Maximum Likelihood Estimation Inference: Examples R,     SAS ADMB.  Chapter 8.","code":""},{"path":"/reference/wedderburn.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"","code":"if (FALSE) {  library(agridat)  data(wedderburn.barley) dat <- wedderburn.barley dat$y <- dat$y/100  libs(lattice) dotplot(gen~y|site, dat, main=\"wedderburn.barley\")  # Use the variance function mu(1-mu).  McCullagh page 330 # Note, 'binomial' gives same results as 'quasibinomial', but also a warning m1 <- glm(y ~ gen + site, data=dat, family=\"quasibinomial\") summary(m1)  # Same shape (different scale) as McCullagh fig 9.1a plot(m1, which=1, main=\"wedderburn.barley\")  # Compare data and model dat$pbin <- predict(m1, type=\"response\") dotplot(gen~pbin+y|site, dat, main=\"wedderburn.barley: observed/predicted\")   # Wedderburn suggested variance function: mu^2 * (1-mu)^2 # Millar shows how to do this explicitly. wedder <- list(varfun=function(mu) (mu*(1-mu))^2,              validmu=function(mu) all(mu>0) && all(mu<1),              dev.resids=function(y,mu,wt) wt * ((y-mu)^2)/(mu*(1-mu))^2,              initialize=expression({                n <- rep.int(1, nobs)                mustart <- pmax(0.001, pmin(0.99,y)) }),              name=\"(mu(1-mu))^2\") m2 <- glm(y ~ gen + site, data=dat, family=quasi(link=\"logit\", variance=wedder)) #plot(m2)  # Alternatively, the 'gnm' package has the 'wedderburn' family. libs(gnm) m3 <- glm(y ~ gen + site, data=dat, family=\"wedderburn\") summary(m3) # Similar to McCullagh fig 9.2   plot(m3, which=1)   title(\"wedderburn.barley\")  # Compare data and model dat$pwed <- predict(m3, type=\"response\") dotplot(gen~pwed+y|site, dat, main=\"wedderburn.barley\") }"},{"path":"/reference/weiss.incblock.html","id":null,"dir":"Reference","previous_headings":"","what":"Soybean balanced incomplete block experiment — weiss.incblock","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"Soybean balanced incomplete block experiment","code":""},{"path":"/reference/weiss.incblock.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"","code":"data(\"weiss.incblock\")"},{"path":"/reference/weiss.incblock.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"data frame 186 observations following 5 variables. block block factor gen genotype (variety) factor yield yield (bu/ac) row row col column","code":""},{"path":"/reference/weiss.incblock.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"Grown Ames, Iowa 1937.  plot 6 feet 16 feet (2 rows,   3 feet apart).  Including space plots, entire experiment   252 ft x 96 feet (7 block * 6 plots * 6 feet = 252, 16*5 plots   plus 4 gaps 4 feet).  Weiss shows figure field (  later doubled dize via using two rows per plot). Note 30 varieties tested.  Varieties 7 14   variety (Mukden).  Although total yields varieties   equal, correction blocks adjusted means identical   values. accuracy , however, claimed constant   characteristic design. Field width: 96 feet Field length: 252 feet","code":""},{"path":"/reference/weiss.incblock.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"Weiss, Martin G. Cox, Gertrude M. (1939).   Balanced Incomplete Block Lattice Square Designs Testing Yield   Differences Among Large Numbers Soybean Varieties.   Agricultural Research Bulletins, Nos. 251-259.   https://lib.dr.iastate.edu/ag_researchbulletins/24/","code":""},{"path":"/reference/weiss.incblock.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"","code":"if (FALSE) {    library(agridat)   data(weiss.incblock)   dat <- weiss.incblock    # True aspect as shown in Weiss and Cox   libs(desplot)   desplot(dat, yield~col*row,           text=gen, shorten='none', cex=.6, out1=block,           aspect=252/96, # true aspect           main=\"weiss.incblock\")       if(require(\"asreml\", quietly=TRUE)){     # Standard inc block analysis used by Weiss and Cox     libs(asreml)     m1 <- asreml(yield ~ gen + block , data=dat)     predict(m1, data=dat, classify=\"gen\")$pvals          ## gen pred.value std.error est.stat     ## G01     24.59    0.8312  Estimable     ## G02     26.92    0.8312  Estimable     ## G03     32.62    0.8312  Estimable     ## G04     26.97    0.8312  Estimable     ## G05     26.02    0.8312  Estimable   }  }"},{"path":"/reference/weiss.lattice.html","id":null,"dir":"Reference","previous_headings":"","what":"Lattice experiment in soybeans. — weiss.lattice","title":"Lattice experiment in soybeans. — weiss.lattice","text":"Lattice experiment soybeans.","code":""},{"path":"/reference/weiss.lattice.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Lattice experiment in soybeans. — weiss.lattice","text":"","code":"data(\"weiss.lattice\")"},{"path":"/reference/weiss.lattice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Lattice experiment in soybeans. — weiss.lattice","text":"data frame 196 observations following 5 variables. yield yield (bu/ac) gen genotype factor, 49 levels rep rep factor, 4 levels col column row row","code":""},{"path":"/reference/weiss.lattice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Lattice experiment in soybeans. — weiss.lattice","text":"Yield test 49 soybean varieties, grown Ames, IA, 1938. Plot dimensions 3x16 feeet. varieties compared variety 26 (Mukden). clear reps positioned field.  one hand, middle three columns rep/square higher yielding, giving appearance reps stacked top . hand, analysis Weiss uses 24 degrees freedom 4*(7-1) fit separate effect column rep (instead across reps).","code":""},{"path":"/reference/weiss.lattice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Lattice experiment in soybeans. — weiss.lattice","text":"Weiss, Martin G. Cox, Gertrude M. (1939).  Balanced Incomplete Block Lattice Square Designs Testing Yield  Differences Among Large Numbers Soybean Varieties.  Table 5.  Agricultural Research Bulletins, Nos. 251-259.  https://lib.dr.iastate.edu/ag_researchbulletins/24/","code":""},{"path":"/reference/weiss.lattice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Lattice experiment in soybeans. — weiss.lattice","text":"","code":"if (FALSE) {    library(agridat)   data(weiss.lattice)   dat <- weiss.lattice    libs(desplot)   desplot(dat, yield~col*row|rep,           text=gen, shorten=\"none\", cex=.8, aspect=3/16, # true aspect           main=\"weiss.lattice (layout uncertain)\", xlab=\"Soybean yields\")     dat <- transform(dat, xf=factor(col), yf=factor(row))   m1 <- lm(terms(yield ~ rep + rep:xf + rep:yf + gen, keep.order=TRUE), data=dat)   anova(m1) # Matches Weiss table 7   ## Response: yield   ##           Df  Sum Sq Mean Sq F value    Pr(>F)   ## rep        3   91.57  30.525  4.7414 0.0039709 **   ## rep:xf    24 2913.43 121.393 18.8557 < 2.2e-16 ***   ## rep:yf    24  390.21  16.259  2.5254 0.0007734 ***   ## gen       48 1029.87  21.456  3.3327 2.652e-07 ***   ## Residuals 96  618.05   6.438      # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     m2 <- asreml(yield ~ rep + rep:xf + rep:yf + gen, data=dat)     # Weiss table 6 means     wald(m2)     predict(m2, data=dat, classify=\"gen\")$pvals     ##  gen pred.value std.error  est.stat     ##  G01      27.74     1.461 Estimable     ##  G02      24.95     1.461 Estimable     ##  G03      24.38     1.461 Estimable     ##  G04      28.05     1.461 Estimable     ##  G05      19.6      1.461 Estimable     ##  G06      23.79     1.461 Estimable   }    }"},{"path":"/reference/welch.bermudagrass.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"Factorial experiment bermuda grass, 4x4x4, N, P, K fertilizers.","code":""},{"path":"/reference/welch.bermudagrass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"data frame 64 observations following 4 variables. n nitrogen fertilizer, 4 levels p phosphorus, 4 levels k potassium, 4 levels yield yield grass, tons/ac","code":""},{"path":"/reference/welch.bermudagrass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"experiment conducted 1955, 1956, 1957. 3 treatment factors: 4 n nitrogen levels: 0, 100, 200, 400 pounds/acre 4 p phosphorous levels: 0, 22, 44, 88 pounds/acre 4 k potassium levels: 0, 42, 84, 168 pounds/acre 3 blocks.   harvests oven-dried.   value mean 3 years 3 replications.   cases, yield increased additions fertilizer nutrients.","code":""},{"path":"/reference/welch.bermudagrass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"Welch, Louis Frederick Adams, William Eugenius Carmon, JL. (1963).   Yield response surfaces, isoquants, economic fertilizer optima   Coastal Bermudagrass.   Agronomy Journal, 55, 63-67. Table 1.   https://doi.org/10.2134/agronj1963.00021962005500010023x","code":""},{"path":"/reference/welch.bermudagrass.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"Jim Albert.   Bayesian Computation R. Page 256. Peter Congdon.   Bayesian Statistical Modeling. Page 124-125. P. McCullagh, John . Nelder.   Generalized Linear Models, 2nd ed. Page 382.","code":""},{"path":"/reference/welch.bermudagrass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"","code":"if (FALSE) {  library(agridat) data(welch.bermudagrass) dat <- welch.bermudagrass # Welch uses 100-pound units of n,p,k. dat <- transform(dat, n=n/100, p=p/100, k=k/100)  libs(latticeExtra) useOuterStrips(xyplot(yield~n|factor(p)*factor(k), data=dat, type='b',                       main=\"welch.bermudagrass: yield for each P*K\",                       xlab=\"Nitro for each Phosphorous level\",                       ylab=\"Yield for each Potassim level\"))   # Fit a quadratic model m1 <- lm(yield ~ n + p + k + I(n^2) + I(p^2) + I(k^2) + n:p + n:k + p:k + n:p:k, data=dat) signif(coef(m1),4) # These match the 3-yr coefficients of Welch, Table 2 ## (Intercept)           n           p           k      I(n^2)      I(p^2) ##     1.94300     2.00700     1.47100     0.61880    -0.33150    -1.29500 ##      I(k^2)         n:p         n:k         p:k       n:p:k ##    -0.37430     0.20780     0.18740     0.23480     0.02789  # Welch Fig 4.  Modeled response curves d1 <- expand.grid(n=seq(0, 4, length=50), p=0, k=0) d1$pred <- predict(m1, d1) d2 <- expand.grid(n=0, p=0, k=seq(0, 1.68, length=50)) d2$pred <- predict(m1, d2) d3 <- expand.grid(n=0, p=seq(0, .88, length=50), k=0) d3$pred <- predict(m1, d3)  op <- par(mfrow=c(1,3), mar=c(5,3,4,1)) plot(pred~n, data=d1, type='l', ylim=c(0,6), xlab=\"N 100 lb/ac\", ylab=\"\") plot(pred~k, data=d2, type='l', ylim=c(0,6), xlab=\"K 100 lb/ac\", ylab=\"\") title(\"welch.bermudagrass - Predicted yield vs fertilizer\", outer=TRUE, line= -3) plot(pred~p, data=d3, type='l', ylim=c(0,6), xlab=\"P 100 lb/ac\", ylab=\"\") par(op)  # Brute-force grid-search optimization of fertilizer quantities, using # $25/ton for grass, $.12/lb for N, $.18/lb for P, $.07/lb for K # Similar to Example 5 in Table 4 of Welch d4 <- expand.grid(n=seq(3,4,length=20), p=seq(.5, 1.5, length=20),                   k=seq(.8, 1.8, length=20)) d4$pred <- predict(m1, newdata=d4) d4 <- transform(d4, income = 25*pred - .12*n*100 + -.18*p*100 -.07*k*100) d4[which.max(d4$income),] # Optimum at 300 lb N, 71 lb P, 148 lb K   # ----- JAGS ----- if(0){   # Congdon (2007) p. 124, provides a Bayesian model based on a GLM   # by McCullagh & Nelder.  We use JAGS and simplify the code.   # y ~ gamma with shape = nu, scale = nu * eps_i   # 1/eps = b0 + b1/(N+a1) + b2/(P+a2) + b3/(K+a3)   # N,P,K are added fertilizer amounts, a1,a2,a3 are background   # nutrient levels and b1,b2,b3 are growth parameters.    libs(rjags)    mod.bug =   \"model {   for(i in 1:nobs) {     yield[i] ~ dgamma(nu, mu[i])     mu[i] <- nu * eta[i]     eta[i] <- b0 + b1 / (N[i]+a1) + b2 / (P[i]+a2) + b3 / (K[i]+a3)     yhat[i] <- 1 / eta[i]   }    # Hyperparameters   nu ~ dgamma(0.01, 0.01)   a1 ~ dnorm(40, 0.01) # Informative priors   a2 ~ dnorm(22, 0.01)   a3 ~ dnorm(32, 0.01)   b0 ~ dnorm(0, 0.0001)   b1 ~ dnorm(0, 0.0001) I(0,) # Keep b1 non-negative   b2 ~ dnorm(0, 0.0001) I(0,)   b3 ~ dnorm(0, 0.0001) I(0,) }\"    jdat <- with(welch.bermudagrass,                list(yield=yield, N=n, P=p, K=k, nobs=64))   jinit = list(a1=40, a2=22, a3=32, b0=.1, b1=10, b2=1, b3=1)    oo <- textConnection(mod.bug)   j1 <- jags.model(oo, data=jdat, inits=jinit, n.chains=3)   close(oo)      c1 <- coda.samples(j1, c(\"b0\",\"b1\",\"b2\",\"b3\", \"a1\",\"a2\",\"a3\"),                      n.iter=10000)    # Results nearly identical go Congdon   print(summary(c1)$statistics[,1:2],dig=1)   # libs(lucid)   # print(vc(c1),3)   ##       Mean     SD   ## a1  44.85  4.123   ## a2  23.63  7.37   ## a3  35.42  8.57   ## b0   0.092 0.0076   ## b1  13.23  1.34   ## b2   1.186 0.47   ## b3   1.50  0.48    d2 <- coda.samples(j1, \"yhat\", n.iter=10000)   dat$yhat <- summary(d2)$statistics[,1]   with(dat, plot(yield, yield-yhat)) }  }"},{"path":"/reference/wheatley.carrot.html","id":null,"dir":"Reference","previous_headings":"","what":"Insecticide treatments for carrot fly larvae — wheatley.carrot","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"Insecticide treatments carrot fly larvae.   Two insecticides five depths.","code":""},{"path":"/reference/wheatley.carrot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"","code":"data(\"wheatley.carrot\")"},{"path":"/reference/wheatley.carrot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"data frame 36 observations following 6 variables. treatment treatment factor, 11 levels insecticide insecticide factor depth depth rep block damaged number damaged plants total total number plants","code":""},{"path":"/reference/wheatley.carrot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"1964 experiment conducted microplots evaluate   effectiveness treatments carrot fly larvae.   treatment factor combination insecticide depth. Hardin & Hilbe used data fit generalized binomial model. Famoye (1995) used data fit generalized binomial regression model.   Results Famoye shown.","code":""},{"path":"/reference/wheatley.carrot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"G Wheatley & H Freeman. (1982).   method using proportions undamaged carrots parsnips   estimate relative population densities carrot fly (Psila rosae)   larvae, practical applications.   Annals Applied Biology, 100, 229-244.  Table 2. https://doi.org/10.1111/j.1744-7348.1982.tb01935.x","code":""},{"path":"/reference/wheatley.carrot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"James William Hardin, Joseph M. Hilbe.   Generalized Linear Models Extensions, 2nd ed. F Famoye (1995). Generalized Binomial Regression.   Biom J, 37, 581-594.","code":""},{"path":"/reference/wheatley.carrot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"","code":"if (FALSE) {  library(agridat)  data(wheatley.carrot) dat <- wheatley.carrot  # Observed proportions of damage dat <- transform(dat, prop=damaged/total) libs(lattice) xyplot(prop~depth|insecticide, data=dat, subset=treatment!=\"T11\",        cex=1.5, main=\"wheatley.carrot\", ylab=\"proportion damaged\")  # Model for Wheatley. Deviance for treatment matches Wheatley, but other # deviances do not.  Why? # treatment:rep is the residual m1 <- glm(cbind(damaged,total-damaged) ~ rep + treatment + treatment:rep,           data=dat, family=binomial(\"cloglog\")) anova(m1)  # GLM of Hardin & Hilbe p. 161. By default, R uses T01 as the base, # but Hardin uses T11. Results match. m2 <- glm(cbind(damaged,total-damaged) ~ rep + C(treatment, base=11),           data=dat, family=binomial(\"cloglog\")) summary(m2) }"},{"path":"/reference/wiebe.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — wiebe.wheat.uniformity","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"Uniformity trial wheat Aberdeen, Idaho, 1927.","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"data frame 1500 observations following 3 variables. row row col column (series) yield yield grams per plot","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"Yield trial conducted 1927 near Aberdeen, Idaho.  crop   Federation wheat (C.. 4734). Plots seeded April 18   drill sowed eight rows time.  Individual rows harvested   August threshed small nursery thresher.  authors   recommend analyzing square root yields. Rows 15 feet long, 1 foot apart. Field width: 12 columns * 15 feet = 180 feet wide. Field length: 125 rows * 12 = 125 feet","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"Wiebe, G.. 1935.   Variation Correlation Grain Yield among 1,500 Wheat   Nursery Plots.   Journal Agricultural Research, 50, 331-357.   https://naldc.nal.usda.gov/download/IND43968632/PDF","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"D.. Preece, 1981,   Distributions final digits data,   Statistician, 30, 31--60.   https://doi.org/10.2307/2987702 Wilkinson et al. (1983).   Nearest Neighbour (NN) Analysis Field Experiments.   J. R. Statist. Soc. B, 45, 151-211.   https://doi.org/10.1111/j.2517-6161.1983.tb01240.x   https://www.jstor.org/stable/2345523 Wiebe, G.. 1937.   Error grain yield attending misspaced wheat nursery rows   extent misspacing effect.   Journal American Society Agronomy, 29, 713-716. F. Yates (1939).   comparative advantages systematic randomized arrangements   design agricultural biological experiments.   Biometrika, 30, 440-466, p. 465   https://archive.org/details/.ernet.dli.2015.231848/page/n473","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"","code":"library(agridat)   data(wiebe.wheat.uniformity)   dat <- wiebe.wheat.uniformity    libs(desplot)   desplot(dat, yield~col+row,           aspect=125/180, flip=TRUE, # true aspect           main=\"wiebe.wheat.uniformity: yield\") # row 1 is at south      # Preece (1981) found the last digits have an interesting distribution   # with 0 and 5 much more common than other digits.   dig <- substring(dat$yield, nchar(dat$yield))   dig <- as.numeric(dig)   hist(dig, breaks=0:10-.5, xlab=\"Last digit\",        main=\"wiebe.wheat.uniformity - histogram of last digit\")    table(dat$col, dig) # Table 3 of Preece #>     dig #>       0  1  2  3  4  5  6  7  8  9 #>   1  61  0  0  0  0 64  0  0  0  0 #>   2  67  0  0  0  0 58  0  0  0  0 #>   3  65  0  0  0  0 60  0  0  0  0 #>   4  66  0  0  0  0 59  0  0  0  0 #>   5  55  0  0  0  0 70  0  0  0  0 #>   6  54  0  0  0  0 71  0  0  0  0 #>   7  69  0  0  0  0 56  0  0  0  0 #>   8  65  0  0  0  0 60  0  0  0  0 #>   9   9 10  7  9 19 19 13 16 13 10 #>   10 13 18 12 10 11 17 14  9  8 13 #>   11 13  9 16 13 16 18  8  6 16 10 #>   12 17  0 11 16 12 17  1 16 20 15    # Wilkinson (1983, p. 152) noted that an 8-row planter was used which   # produced a recurring pattern of row effects on yield.  This can be seen   # in the high autocorrelations of row means at lag 8 and lag 16   rowm <- tapply(dat$yield, dat$row, mean)   acf(rowm, main=\"wiebe.wheat.uniformity row means\")    # Plot the row mean against the planter row unit 1-8   libs(\"lattice\")   xyplot(rowm~rep(1:8, length=125),          main=\"wiebe.wheat.uniformity\",          xlab=\"Planter row unit\", ylab=\"Row mean yield\")     # Wiebe (1937) and Yates (1939) show the effect of \"guess rows\"   # caused by the 8-row drill passing back and forth through   # the field.   # Yates gives the distance between strips (8 rows per strip) as:   # 10.2,12.4,11.7,13.4,10.6,14.2,11.8,13.8,12.2,13.1,11.2,14,11.3,12.9,12.4    # First give each row 12 inches of growing width between rows   tmp <- data.frame(row=1:125,area=12)   # Distance between rows 8,9 is 10.2 inches, so we give these two   # rows 6 inches (on the 'inside' of the strip) and 10.2/2=5.1 inches   # on the outside of the strip, total 11.1 inches   tmp$area[8:9] <- 6 + 10.2/2   tmp$area[16:17] <- 6 + 12.4/2   tmp$area[24:25] <- 6 + 11.7/2   tmp$area[32:33] <- 6 + 13.4/2   tmp$area[40:41] <- 6 + 10.6/2   tmp$area[48:49] <- 6 + 14.2/2   tmp$area[56:57] <- 6 + 11.8/2   tmp$area[64:65] <- 6 + 13.8/2   tmp$area[72:73] <- 6 + 12.2/2   tmp$area[80:81] <- 6 + 13.1/2   tmp$area[88:89] <- 6 + 11.2/2   tmp$area[96:97] <- 6 + 14.0/2   tmp$area[104:105] <- 6 + 11.3/2   tmp$area[112:113] <- 6 + 12.9/2   tmp$area[120:121] <- 6 + 12.4/2   dat <- merge(dat, tmp)    # It's not clear if Wiebe used border rows...we delete them   dat <- subset(dat, row >  1 & row < 125)    # Wiebe (1937) calculated a moving average to adjust for fertility   # effects, then used only the OUTER rows of each 8-row drill strip   # and found 21.5 g / inch of space between rows.  We used all the   # data without correcting for fertility and obtained 33.1 g / inch.   xyplot(yield ~ area, dat, type=c('p','r'),          main=\"wiebe.wheat.uniformity\",          xlab=\"Average area per row\", ylab=\"Yield\")    coef(lm(yield ~ area, dat))[2] #>    area  #> 33.1033    # 33.1"},{"path":"/reference/wiedemann.safflower.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of safflower — wiedemann.safflower.uniformity","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"Uniformity trial safflower Farmington, Utah, 1960.","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"","code":"data(\"wiedemann.safflower.uniformity\")"},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"data frame 1782 observations following 3 variables. row row col column yield yield, grams","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"trial planted University Field Station, Farmington, Utah,   1960, plot land one half acre size.  soil   uniform...northern third field clay   rest gravelly. Rows planted 22 inches apart, 62 rows total,   row running length field. harvest, 4 rows   removed side, 12 feet removed end.    row harvested five-foot lengths, threshed, seed weighed   nearest gram. northern third field yields twice high   remaining part field soil better moisture   retention. remaining part field yields   uniform. Wiedemann determined optimum plot size 8 basic   plots. shape plot important. , two-row   plots recommended simplicity harvest, 3.33 feet 20   feet. Based operational costs, K1=74 percent K2=26 percent. Field width: 33 plots/ranges * 5ft = 165 feet Field length: 54 rows * 22 /row = 99 feet original source document columns labeled 33, 32, ... 1.    columns labeled 1:33 plotting tools work normally.   See Wiedemann figure 8. Wiedemann notes statistical analysis data required 100   hours labor.  Today analysis takes second. R package, tables Wiedemann converted OCR   digital format, values checked hand.","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"Wiedemann, Alfred Max. 1962.   Estimation Optimum Plot Size Shape Use Safflower Yield Trails. Table 5.   Graduate Theses Dissertations. Paper 3600. Table 5.   https://digitalcommons.usu.edu/etd/3600   https://doi.org/10.26076/7184-afa1","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"None.","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"","code":"if (FALSE) {  library(agridat)    data(wiedemann.safflower.uniformity)   dat <- wiedemann.safflower.uniformity    # CV of entire field = 39   sd(dat$yield)/mean(dat$yield)    libs(desplot)   desplot(dat, yield~col*row,           flip=TRUE, tick=TRUE, aspect =99/165, # true aspect           main=\"wiedemann.safflower.uniformity (true shape)\")    libs(agricolae)   libs(reshape2)   dmat <- acast(dat, row~col, value.var='yield')   agricolae::index.smith(dmat,               main=\"wiedemann.safflower.uniformity\",               col=\"red\")    }"},{"path":"/reference/williams.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — williams.barley.uniformity","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Uniformity trial barley Narrabri, New South Wales, 1984.","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — williams.barley.uniformity","text":"data frame 720 observations following 3 variables. row row col column yield grain yield kg/ha divided 10","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Grown Roseworthy Agricultural College.  Plots 5 m long (4 m   sown, 3.3 m harvested) 0.75 m wide. three-plot seeder used, planting serpentine fashion.   Williams noted appears middle plot pass   lower yield, possibly due soil compaction tractor. Field width: 48 plots * .75 m = 36 m Field length: 15 plots * 5 m = 75 m","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Williams, ER Luckett, DJ. 1988.   use uniformity data design analysis cotton barley variety trials.   Australian Journal Agricultural Research, 39, 339-350.   https://doi.org/10.1071/AR9880339","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Maria Xose Rodriguez-Alvarez, Martin P. Boer, Fred . van Eeuwijk, Paul   H. C. Eilersd (2018).   Correcting spatial heterogeneity plant breeding experiments   P-splines.   Spatial Statistics, 23, 52-71.   https://doi.org/10.1016/j.spasta.2017.10.003","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — williams.barley.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(williams.barley.uniformity) dat <- williams.barley.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         aspect= 75/36, # true aspect         main=\"williams.barley.uniformity\")   # Smoothed contour/persp plot like Williams Fig 1b, 2b libs(lattice) dat$fit <- fitted(loess(yield~col*row, dat, span=.1)) contourplot(fit~col*row, data=dat,             aspect=75/36, region=TRUE, col.regions=RedGrayBlue,             main=\"williams.barley.uniformity\") wireframe(fit~col*row, data=dat, zlim=c(100, 350),           main=\"williams.barley.uniformity\")  # Williams table 1 anova(aov(yield ~ factor(row) + factor(col), dat))  }"},{"path":"/reference/williams.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — williams.cotton.uniformity","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"Uniformity trial cotton Narrabri, New South Wales, 1984.","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"data frame 288 observations following 3 variables. row row col column yield lint yield, kg/ha divided 10","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"Cotton uniformity trial grown Narrabri, New South Wales, 1984-1985.   Plots 12m long, 1m apart, 12 rows 24 columns,   irrigation furrow columns. Field width: 24 plots * 1 m = 24 m Field length: 12 plots * 12 m = 144 m","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"Williams, ER Luckett, DJ. 1988.   use uniformity data design analysis cotton barley variety trials.   Australian Journal Agricultural Research, 39, 339-350.   https://doi.org/10.1071/AR9880339","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(williams.cotton.uniformity) dat <- williams.cotton.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         aspect=144/24, # true aspect         main=\"williams.cotton.uniformity\")   # Smoothed contour/persp plot like Williams 1988 Fig 1a, 2a dat$fit <- fitted(loess(yield~col*row, dat, span=.5)) libs(\"lattice\") contourplot(fit~col*row, data=dat,             aspect=144/24,             region=TRUE, cuts=6, col.regions=RedGrayBlue,             main=\"williams.cotton.uniformity\") # wireframe(fit~col*row, data=dat, zlim=c(100, 250), #           main=\"williams.cotton.uniformity\")  # Williams table 1 anova(aov(yield ~ factor(row) + factor(col), dat)) }"},{"path":"/reference/williams.trees.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"Multi-environment trial trees, height / survival 37 species 6 sites Thailand","code":""},{"path":"/reference/williams.trees.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"data frame 222 observations following 4 variables. env Environment factor, 6 levels gen Genetic factor, 37 levels height Height (cm) survival Survival percentage","code":""},{"path":"/reference/williams.trees.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"Planted 1985 six sites Thailand.  RCB 3 reps.  data   mean three reps.  Plots 5 meters square   spacing 2m x 2m.  Measurements collected 24 months.  gen   column data actually seedlot, tree species   multiple seed lots.  trees mostly acacia eucalyptus. Used permission Emlyn Williams.","code":""},{"path":"/reference/williams.trees.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"Williams, ER Luangviriyasaeng, V. 1989.   Statistical analysis tree species trial seedlot:site   interaction Thailand.  Chapter 14 Trees     Tropics: Growing Australian Multipurpose Trees Shrubs     Developing Countries. Pages 145--152.   https://aciar.gov.au/publication/MN010","code":""},{"path":"/reference/williams.trees.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"E. R. Williams . C. Matheson C. E Harwood,   Experimental Design Analysis Tree Improvement.   CSIRO Publishing, 2002.","code":""},{"path":"/reference/williams.trees.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"","code":"if (FALSE) {  library(agridat) data(williams.trees) dat <- williams.trees  libs(lattice) xyplot(survival~height|env,dat, main=\"williams.trees\", xlab=\"Height\", ylab=\"Percent surviving\") }"},{"path":"/reference/woodman.pig.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight gain in pigs for different treatments — woodman.pig","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Weight gain pigs different treatments, initial weight   feed eaten covariates.","code":""},{"path":"/reference/woodman.pig.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Weight gain in pigs for different treatments — woodman.pig","text":"","code":"data(\"woodman.pig\")"},{"path":"/reference/woodman.pig.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight gain in pigs for different treatments — woodman.pig","text":"data frame 30 observations following 7 variables. pen pen treatment diet pig pig number sex sex weight1 initial weight pounds, week 0 weight2 final weight pounds, week 16 feed feed eaten pounds w0 initial weight g average weekly gain h half rate change growth","code":""},{"path":"/reference/woodman.pig.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Six pigs 5 pens fed individually. litter   3 males 3 females chosen pen. Three different   diet treatments used. Note: Woodman gives initial weights nearest 0.5   pounds. w0, g, h columns Wishart 1938. Wishart used weekly   weight measurements (available) fit quadratic growth curves   pig reported constants. data   widely used many authors.","code":""},{"path":"/reference/woodman.pig.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Woodman, Evans, Callow & Wishart (1936).   nutrition bacon pig. . influence high levels protein intake growth, conformation quality bacon pig.   Journal Agricultural Science, 26, 546 - 619.    Table V, Page 557.   https://doi.org/10.1017/S002185960002308X Wishart, J. (1938).   Growth-rate determinations nutrition studies bacon pig analysis.   Biometrika, 30: 16-28. Page 20, table 2.   https://doi.org/10.2307/2332221","code":""},{"path":"/reference/woodman.pig.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Wishart (1950) Table 2, p 17. Bernard Ostle (1963). Statistics Research, 2nd ed. Page 455.   https://archive.org/details/secondeditionsta001000mbp Henry Scheffe (1999).   Analysis Variance.  Page 217. Peter H Westfall, Randall Tobias, Russell D Wolfinger (2011).   Multiple Comparisons Multiple Tests using SAS. Sec 8.3.","code":""},{"path":"/reference/woodman.pig.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight gain in pigs for different treatments — woodman.pig","text":"","code":"if (FALSE) {   library(agridat)   data(woodman.pig)   dat <- woodman.pig      # add day of year for each weighing   dat <- transform(dat, date1=36, date2=148)   plot(NA, xlim=c(31,153), ylim=c(28,214),        xlab=\"day of year\", ylab=\"weight\")   segments(dat$date1, dat$weight1, dat$date2, dat$weight2,            col=as.numeric(as.factor(dat$treatment)))   title(\"woodman.pig\")    # Average gain per week   dat <- transform(dat, pen=factor(pen), treatment=factor(treatment),                    sex=factor(sex))   m1 <- lm(g ~ -1 + pen + treatment +sex + treatment:sex + w0, data=dat)   anova(m1)   # Compare diets. Results similar to Westfall 8.13   libs(emmeans)   pairs(emmeans(m1, \"treatment\"))   # NOTE: Results may be misleading due to involvement in interactions   #  contrast estimate    SE df t.ratio p.value   #  A - B      0.4283 0.288 19 1.490   0.3179    #  A - C      0.5200 0.284 19 1.834   0.1857    #  B - C      0.0918 0.288 19 0.319   0.9456  }"},{"path":"/reference/wyatt.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"Uniformity trial oats wheat ground.","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"","code":"data(\"wyatt.multi.uniformity\")"},{"path":"/reference/wyatt.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"data frame 258 observations following 5 variables. col column row row yield yield, bu/ac year year crop crop","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"Experiments conducted Soils Experimental field   University Alberta, Canada. Oats grown 1925, average yield 88 bu/ac. Wheat grown 1926, average yield 32.2 bu/ac. data reported relative yields within year. plot size rows 1 2 (Series B original paper) 1/10th acre.   plot size row 3 1/11 acre. Field length: 3 plots (140 ft, 140 ft, 128 ft) + 2 roads * 16 feet = 440 feet. Field width: 43 plots * 37 ft = 1591 feet.","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"F. . Wyatt (1927).   Variation plot yields due soil heterogeneity.   Scientific Agriculture, 7, 248-256. Table 1.   https://doi.org/10.4141/sa-1927-0020","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"None","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"","code":"if (FALSE) {  library(agridat) data(wyatt.multi.uniformity) dat <- wyatt.multi.uniformity  # range of yields. Wyatt has 48.6 bu/ac for oats, 10.4 for wheat # diff(range(na.omit(subset(dat, crop==\"oats\")$yield)/100*88)) # 48.4 # diff(range(na.omit(subset(dat, crop==\"wheat\")$yield)/100*32.8)) # 10.5   # std dev. Wyatt has 9.18 bu/ac for oats, 2.06 for wheat, 2.06 for wheat # sd(na.omit(subset(dat, crop==\"oats\")$yield)/100*88) # 9.11 # sd(na.omit(subset(dat, crop==\"wheat\")$yield)/100*32.8) # 2.14  # correlation across years. Wyatt has .08 # cor(reshape2::acast(dat, row+col ~ crop, value.var=\"yield\"), use=\"pair\")  # Fig 3 libs(lattice) xyplot(yield ~ col|factor(row), dat, group=crop,        main=\"wyatt.multi.uniformity\",        type='l', layout=c(1,3), auto.key=TRUE )                  libs(desplot) desplot(dat, yield ~ col*row, subset=crop==\"oats\",         tick=TRUE,         aspect=(440)/(1591), # true aspect         main=\"wyatt.multi.uniformity - 1925 oats\") desplot(dat, yield ~ col*row, subset=crop==\"wheat\",         aspect=(440)/(1591), # true aspect         main=\"wyatt.multi.uniformity - 1926 wheat\") }"},{"path":"/reference/yan.winterwheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"Yield 18 varieties winter wheat grown 9 environments   Ontario 1993.","code":""},{"path":"/reference/yan.winterwheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"yield mean several reps, measured metric tons per hectare. data often used illustrate GGE biplots.","code":""},{"path":"/reference/yan.winterwheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"data frame 162 observations following 3 variables. gen genotype env environment yield yield metric tons per hectare Used permission Weikai Yan.","code":""},{"path":"/reference/yan.winterwheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"Weikai Yan M.S. Kang (2002).   GGE biplot analysis: graphical tool breeders, geneticists,   agronomists.   CRC. Page 59. Weikai Yan Nicholas . Tinker. 2006.   Biplot analysis multi-environment trial data: Principles   applications. Table 1.","code":""},{"path":"/reference/yan.winterwheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"Weikai Yan Manjit S. Kang Baoluo Ma Sheila Woods, 2007,   GGE Biplot vs. AMMI Analysis Genotype--Environment Data,   Crop Science, 2007, 47, 641--653.   https://doi.org/10.2135/cropsci2006.06.0374","code":""},{"path":"/reference/yan.winterwheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"","code":"if (FALSE) {  library(agridat)  data(yan.winterwheat) dat <- yan.winterwheat  libs(gge) m1 <- gge(dat, yield ~ gen*env) biplot(m1, flip=c(1,1), hull=TRUE,        main=\"yan.winterwheat - GGE biplot\")  }"},{"path":"/reference/yang.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"Yield 6 barley varieties 18 locations Alberta.","code":""},{"path":"/reference/yang.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"","code":"data(\"yang.barley\")"},{"path":"/reference/yang.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"data frame 108 observations following 3 variables. site site factor, 18 levels gen genotype factor, 6 levels yield yield, Mg/ha","code":""},{"path":"/reference/yang.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"experiment 2003.  Yang (2013) uses data illustrate   procedure bootstrapping biplots.  Used permission Rong-Cai Yang.","code":""},{"path":"/reference/yang.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"Rong-Cai Yang (2007).   Mixed-Model Analysis Crossover Genotype-Environment Interactions.   Crop Science, 47, 1051-1062.   https://doi.org/10.2135/cropsci2006.09.0611","code":""},{"path":"/reference/yang.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"Zhiqiu Hu Rong-Cai Yang, (2013).   Improved Statistical Inference Graphical Description   Interpretation Genotype x Environment Interaction.   Crop Science, 53, 2400-2410.   https://doi.org/10.2135/cropsci2013.04.0218","code":""},{"path":"/reference/yang.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"","code":"if (FALSE) {  library(agridat) data(yang.barley) dat <- yang.barley  libs(reshape2) dat <- acast(dat, gen~site, value.var='yield')    ## For bootstrapping of a biplot, see the non-cran packages:   ## 'bbplot' and 'distfree.cr'   ## https://statgen.ualberta.ca/index.html?open=software.html   ## install.packages(\"https://statgen.ualberta.ca/download/software/bbplot_1.0.zip\")   ## install.packages(\"https://statgen.ualberta.ca/download/software/distfree.cr_1.5.zip\")    ## libs(SDMTools)   ## libs(distfree.cr)   ## libs(bbplot)    ## d1 <- bbplot.boot(dat, nsample=2000) # bootstrap the data   ## plot(d1) # plot distributions of principal components   ## b1 <- bbplot(d1) # create data structures for the biplot   ## plot(b1) # create the confidence regions on the biplot  }"},{"path":"/reference/yates.missing.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of potato, 3x3 with missing values — yates.missing","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"Factorial experiment potato, 3x3 missing values.","code":""},{"path":"/reference/yates.missing.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"data frame 80 observations following 3 variables. trt treatment factor, 8 levels block block, 10 levels y infection intensity n nitrogen treatment, 2 levels p phosphorous treatment, 2 levels k potassium treatment, 2 levels","code":""},{"path":"/reference/yates.missing.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"response variable y intensity infection potato   tubers innoculated Phytophthora Erythroseptica. 3 treatment factors: 2 nitrogen levels 2 phosphorous levels 2 potassium levels Yates (1933) presents iterative algorithm estimate missing   values matrix, using data example.","code":""},{"path":"/reference/yates.missing.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"F. Yates (1933).   analysis replicated experiments field results incomplete.   Emp. J. Exp. Agric., 1, 129--142.","code":""},{"path":"/reference/yates.missing.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"Steel & Torrie (1980).   Principles Procedures Statistics, 2nd Edition, page 212.","code":""},{"path":"/reference/yates.missing.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"","code":"if (FALSE) {  library(agridat) data(yates.missing) dat <- yates.missing  libs(lattice) bwplot(y ~ trt, data=dat,        xlab=\"Treatment\", ylab=\"Infection intensity\",        main=\"yates.missing\")  libs(reshape2) mat0 <- acast(dat[, c('trt','block','y')], trt~block,                id.var=c('trt','block'), value.var='y')  # Use lm to estimate missing values.  The estimated missing values # are the same as in Yates (1933) m1 <- lm(y~trt+block, dat) dat$pred <- predict(m1, new=dat[, c('trt','block')]) dat$filled <- ifelse(is.na(dat$y), dat$pred, dat$y) mat1 <- acast(dat[, c('trt','block','pred')], trt~block,                id.var=c('trt','block'), value.var='pred')   # Another method to estimate missing values via PCA libs(\"nipals\") m2 <- nipals(mat0, center=FALSE, ncomp=3, fitted=TRUE) # mat2 <- m2$scores  mat2 <- m2$fitted    # See also pcaMethods::svdImpute      # Compare   ord <- c(\"0\",\"n\",\"k\",\"p\",\"nk\",\"np\",\"kp\",\"nkp\")   print(mat0[ord,], na.print=\".\")   round(mat1[ord,] ,2)   round(mat2[ord,] ,2)      # mat2 SVD with 3 components recovers original data better than   # mat1 from lm()   sum((mat0-mat1)^2, na.rm=TRUE)   sum((mat0-mat2)^2, na.rm=TRUE) # Smaller SS => better fit }"},{"path":"/reference/yates.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of oats — yates.oats","title":"Split-plot experiment of oats — yates.oats","text":"yield oats split-plot field trial conducted   Rothamsted 1931. Varieties applied main plots. Manurial (nitrogen) treatments applied sub-plots. plot 1/80 acre = 28.4 links * 44 links. Field width: 4 plots * 44 links = 176 links. Field length: 18 rows * 28.4 links = 511 links 'block' numbers data given Rothamsted Report.   'grain' 'straw' values actual pounds per sub-plot   shown Rothamsted Report.  sub-plot 1/80 acre,   'hundredweight (cwt)' 112 pounds, converting sub-plot   weight hundredweight/acre needs conversion factor 80/112. 'yield' values values appeared paper   Yates, used 1/4-pounds units (.e. multiplied   original weight 4) simpler calculations.","code":""},{"path":"/reference/yates.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of oats — yates.oats","text":"row row col column yield yield 1/4 pounds per sub-plot, 1/80 acre nitro nitrogen treatment hundredweight per acre gen genotype, 3 levels block block, 6 levels grain grain weight pounds per sub-plot straw straw weight pounds per sub-plot","code":""},{"path":"/reference/yates.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of oats — yates.oats","text":"Report 1931. Rothamsted Experiment Station. Page 143.   https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1931-141-159","code":""},{"path":"/reference/yates.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-plot experiment of oats — yates.oats","text":"Yates, Frank (1935) Complex experiments,   Journal Royal Statistical Society Supplement 2, 181-247. Figure 2.   https://doi.org/10.2307/2983638","code":""},{"path":"/reference/yates.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of oats — yates.oats","text":"","code":"if (FALSE) {    library(agridat)   data(yates.oats)   dat <- yates.oats    ## # Means match Rothamsted report p. 144   ## libs(dplyr)   ## dat    ##   summarize(grain=mean(grain)*80/112,   ##             straw=mean(straw)*80/112)    libs(desplot)   # Experiment design & yield heatmap   desplot(dat, block ~ col*row, col.regions=c(\"black\",\"yellow\"),           out1=block, num=nitro, col=gen,           cex=1, aspect=511/176, # true aspect           main=\"yates.oats\")     # Roughly linear gradient across the field.  The right-half of each   # block has lower yield.  The blocking is inadequate!   libs(\"lattice\")   xyplot(yield ~ col|factor(nitro), dat,          type = c('p', 'r'), xlab='col', as.table = TRUE,          main=\"yates.oats\")    libs(lme4)   # Typical split-plot analysis. Non-significant gen differences   m3 <- lmer(yield ~ factor(nitro) * gen + (1|block/gen), data=dat)   # Residuals still show structure   xyplot(resid(m3) ~ dat$col, xlab='col', type=c('p','smooth'),          main=\"yates.oats\")    # Add a linear trend for column   m4 <- lmer(yield ~ col + factor(nitro) * gen + (1|block/gen), data=dat)   # xyplot(resid(m4) ~ dat$col, type=c('p','smooth'), xlab='col')    ## Compare fits   AIC(m3,m4)   ##    df      AIC   ## m3  9 581.2372   ## m4 10 557.9424 # Substantially better     # ----------    # Marginal predictions    # --- nlme ---   libs(nlme)   libs(emmeans)   # create unbalance   dat2 <- yates.oats[-c(1,2,3,5,8,13,21,34,55),]   m5l <- lme(yield ~ factor(nitro) + gen, random = ~1 | block/gen,              data = dat2)    # asreml r 4 has a bug with asreml( factor(nitro))   dat2$nitrof <- factor(dat2$nitro)    # --- asreml  ---   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     m5a <- asreml(yield ~ nitrof + gen,                   random = ~ block + block:gen, data=dat2)     lucid::vc(m5l)     lucid::vc(m5a)    emmeans::emmeans(m5l, \"gen\")   predict(m5a, data=dat2, classify=\"gen\")$pvals   }     }"},{"path":"/reference/zuidhof.broiler.html","id":null,"dir":"Reference","previous_headings":"","what":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"Daily weight, feed, egg measurements broiler chicken","code":""},{"path":"/reference/zuidhof.broiler.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"data frame 59 observations following 6 variables. bw Body weight, grams targetbw Target body weight, grams adfi Average daily feed intake, grams adg Average daily gain, grams eggwt Egg weight, grams age Age, days","code":""},{"path":"/reference/zuidhof.broiler.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"Using graphs like one examples section, authors   discovered drop body weight commonly occurs around time   first egg production. Used permission Martin Zuidhof.","code":""},{"path":"/reference/zuidhof.broiler.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"Martin J. Zuidhof Robert . Renema Frank E. Robinson, (2008).   Understanding Multiple, Repeated Animal Measurements Help   PROC GPLOT.  SAS Global Forum 2008, Paper 250-2008.   https://support.sas.com/resources/papers/proceedings/pdfs/sgf2008/250-2008.pdf","code":""},{"path":"/reference/zuidhof.broiler.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"","code":"if (FALSE) { library(agridat) data(zuidhof.broiler) dat <- zuidhof.broiler  dat <- transform(dat, age=age/7) # Change days into weeks  # Reproducing figure 1 of Zuidhof et al.  # Plot using left axis op <- par(mar=c(5,4,4,4)) plot(bw~age, dat, xlab=\"Age (weeks)\", ylab=\"Bodyweight (g)\",      main=\"zuidhof.broiler\",      xlim=c(20,32), ylim=c(0,4000), pch=20) lines(targetbw~age, subset(dat, !is.na(targetbw)), col=\"black\")  # Now plot using the right axis par(new=TRUE) plot(adfi~age, subset(dat, !is.na(adfi)),      xlab=\"\", ylab=\"\", xlim=c(20,32), xaxt=\"n\",yaxt=\"n\",      ylim=c(-50,175), type=\"s\", lty=2) axis(4, at=c(-50,-25,0,25,50,75,100,125,150,175), col=\"red\", col.axis=\"red\") mtext(\"Weight (g)\", side=4, line=2, col=\"red\") lines(adg~age, subset(dat, !is.na(adg)), col=\"red\", type=\"s\", lty=1, lwd=2) abline(h=c(0,52), col=\"red\") with(dat, segments(age, 0, age, eggwt, col=\"red\"))  legend(20, -40, c(\"Body weight\", \"Target BW\", \"Feed/day\", \"Gain/day\", \"Egg wt\"),        bty=\"n\", cex=.5, ncol=5,        col=c(\"black\",\"black\",\"red\",\"red\",\"red\"),        lty=c(-1,1,2,1,1), lwd=c(1,1,1,2,1), pch=c(20,-1,-1,-1,-1)) par(op) }"},{"path":[]},{"path":"/news/index.html","id":"new-datasets-added-1-24","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.24 (unpublished)","text":"haritonenko.sugarbeet.uniformity jegorow.oats.uniformity jurowski.wheat.uniformity roemer.sugarbeet.uniformity siao.cotton.uniformity tulaikow.wheat.uniformity","code":""},{"path":"/news/index.html","id":"other-notes-1-24","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.24 (unpublished)","text":"baker.strawberry.uniformity: inserted 3 blank columns closely align experiment layout. garber.multi.uniformity: data reshaped tall additional years added. shafi.tomato.uniformity: incorrect yield scale, now divided 1000. odland.soyhay.uniformity: Yields divided 10 yield values now tons instead 0.1 tons.","code":""},{"path":"/news/index.html","id":"agridat-123-2024-01-30","dir":"Changelog","previous_headings":"","what":"agridat 1.23 (2024-01-30)","title":"agridat 1.23 (2024-01-30)","text":"CRAN release: 2024-02-06","code":""},{"path":[]},{"path":"/news/index.html","id":"other-notes-1-23","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.23 (2024-01-30)","text":"Removed suggested use sf/terra packages examples. Add (require(\"asreml\", quietly=TRUE)) example sections. way can allow people (GitHub Actions) force run dontrun sections, even asreml installed. cochran.eelworms - Fix typo reported U.Genschel, added columns grain yield, straw yield, weeds. Updates documentation. gartner.corn - Remove ‘rgdal’ package example (Issue #11).","code":""},{"path":"/news/index.html","id":"agridat-122-2023-08-24","dir":"Changelog","previous_headings":"","what":"agridat 1.22 (2023-08-24)","title":"agridat 1.22 (2023-08-24)","text":"CRAN release: 2023-08-25","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-22","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.22 (2023-08-24)","text":"bailey.cotton.uniformity belamkar.augmented (augmented design multiple locations) chakravertti.factorial (3 block, 3x5x3x3 factorial large factorial experiment) coombs.rice.uniformity evans.sugarcane.uniformity (Data Rothamsted archive) forster.wheat.uniformity goulden.barley.uniformity (expanded previously published 20x20 48x48) hansen.multi.uniformity (multi-year uniformity trials) heath.cabbage.uniformity hutchinson.cotton.uniformity (Data Rothamsted archive) immer.sugarbeet.uniformity (add year 1931 results Rothamsted archive) khan.brassica.uniformity kirk.potato (20 varieties 15 reps) mckinstry.cotton.uniformity (Data Rothamsted archive) payne.wheat (long term rotation experiment) riddle.wheat (Modified Latin Square, “significant” variety switches high/low) saunders.maize.uniformity (Data Rothamsted archive) smith.wheat.uniformity (classic data measuring field heterogeneity) summerby.multi.uniformity tesfaye.millet (GxE dataset multiple reps, xy coordinates) vishnaadevi.rice.uniformity","code":""},{"path":"/news/index.html","id":"other-notes-1-22","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.22 (2023-08-24)","text":"Switched package MIT license. Modified factorial-experiment datasets separate treatment factors individual treatment factors. Add docType{package} fix CRAN. Removed ‘donttest’ examples.","code":""},{"path":"/news/index.html","id":"agridat-121-2022-06-15","dir":"Changelog","previous_headings":"","what":"agridat 1.21 (2022-06-15)","title":"agridat 1.21 (2022-06-15)","text":"CRAN release: 2022-06-15","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-21","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.21 (2022-06-15)","text":"bachmaier.quadratic (confidence intervals optimum quadratic) ducker.groundnut.uniformity kling.augmented (augmented design) sharma.met (Finlay-Wilkinson regression)","code":""},{"path":"/news/index.html","id":"agridat-120-2021-12-20","dir":"Changelog","previous_headings":"","what":"agridat 1.20 (2021-12-20)","title":"agridat 1.20 (2021-12-20)","text":"CRAN release: 2021-12-20","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-20","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.20 (2021-12-20)","text":"arankacami.groundnut.uniformity barrero.maize buntaran.wheat gomez.heterogeneity grover.diallel grover.rcb.subsample hadasch.lettuce hadasch.lettuce.markers jones.corn.uniformity petersen.sorghum.cowpea woodman.pig","code":""},{"path":"/news/index.html","id":"other-notes-1-20","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.20 (2021-12-20)","text":"Re-named mead.cowpeamaize mead.cowpea.maize. Re-named correa.soybean.uniformity dasilva.soybean.uniformity. 200 URLs vignettes slow check generated many false warnings. Stopped Rmd html conversion creating URL links via option Rmd YAML.","code":""},{"path":"/news/index.html","id":"agridat-118-2021-01-12","dir":"Changelog","previous_headings":"","what":"agridat 1.18 (2021-01-12)","title":"agridat 1.18 (2021-01-12)","text":"CRAN release: 2021-01-12","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-18","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.18 (2021-01-12)","text":"damesa.maize jayaraman.bamboo nair.turmeric.uniformity shafi.tomato.uniformity","code":""},{"path":"/news/index.html","id":"agridat-117-2020-08-03","dir":"Changelog","previous_headings":"","what":"agridat 1.17 (2020-08-03)","title":"agridat 1.17 (2020-08-03)","text":"CRAN release: 2020-08-03","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-17","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.17 (2020-08-03)","text":"alwan.lamb, baker.strawberry.uniformity, besag.checks, bryan.corn.uniformity, davidian.soybean, devries.pine, edwards.oats, george.wheat, hartman.tomato.uniformity, heath.radish.uniformity, johnson.douglasfir, kayad.alfalfa, kerr.sugarcane.uniformity, laycock.tea.uniformity, lehmann.millet.uniformity, linder.wheat, loesell.bean.uniformity, miguez.biomass, obsi.potato.uniformity, paez.coffee.uniformity, pederson.lettuce.repeated, piepho.barley.uniformity, rothamsted.oats, shaw.oats, wyatt.multi.uniformity","code":""},{"path":"/news/index.html","id":"other-notes-1-17","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.17 (2020-08-03)","text":"Examples now use asreml version 4. Re-named hutchinson.cotton.uniformity panse.cotton.uniformity. Added INLA example crowder.seeds. Wrapped example sections dontrun. New function libs(), basically pacman::p_load(), without dependency pacman. Example sections now use library(agridat) libs() load packages fly needed. Website built pkgdown.","code":""},{"path":"/news/index.html","id":"agridat-116-2018-07-06","dir":"Changelog","previous_headings":"","what":"agridat 1.16 (2018-07-06)","title":"agridat 1.16 (2018-07-06)","text":"CRAN release: 2018-07-06 Minor release make small change next release broom package.","code":""},{"path":"/news/index.html","id":"agridat-115-2018-06-28","dir":"Changelog","previous_headings":"","what":"agridat 1.15 (2018-06-28)","title":"agridat 1.15 (2018-06-28)","text":"CRAN release: 2018-06-27","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-15","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.15 (2018-06-28)","text":"ansari.wheat.uniformity, baker.wheat.uniformity, bancroft.peanut.uniformity, bose.multi.uniformity, christidis.cotton.uniformity, dasilva.soybean.uniformity, davies.pasture.uniformity, eden.tea.uniformity, hutchinson.cotton.uniformity, igue.sugarcane.uniformity, kulkarni.sorghum.uniformity, lander.multi.uniformity, lord.rice.uniformity, magistad.pineapple.uniformity, nagai.strawberry.uniformity, narain.sorghum.uniformity, robinson.peanut.uniformity, sayer.sugarcane.uniformity, strickland.apple.uniformity, strickland.grape.uniformity, strickland.peach.uniformity, strickland.tomato.uniformity dasilva.maize, mead.turnip","code":""},{"path":"/news/index.html","id":"other-notes-1-15","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.15 (2018-06-28)","text":"nonnecke.corn.uniformity renamed nonnecke.sweetcorn.uniformity moore.carrots.uniformity renamed moore.carrot.uniformity Switch lsmeans emmeans examples.","code":""},{"path":"/news/index.html","id":"agridat-113-2017-11-30","dir":"Changelog","previous_headings":"","what":"agridat 1.13 (2017-11-30)","title":"agridat 1.13 (2017-11-30)","text":"CRAN release: 2017-11-29","code":""},{"path":"/news/index.html","id":"new-datasets-added-for-uniformity-trials-1-13","dir":"Changelog","previous_headings":"","what":"New datasets added for uniformity trials","title":"agridat 1.13 (2017-11-30)","text":"bradley.multi.uniformity, christidis.wheat.uniformity, day.wheat.uniformity, draper.safflower.uniformity, holtsmark.timothy.uniformity, iyer.wheat.uniformity, kadam.millet.uniformity, kalamkar.wheat.uniformity, khin.rice.uniformity, kiesselbach.oats.uniformity, kristensen.barley.uniformity, lessman.sorghum.uniformity, love.cotton.uniformity, masood.rice.uniformity, mcclelland.corn.uniformity, montgomery.wheat.uniformity, moore.polebean.uniformity, moore.bushbean.uniformity, moore.sweetcorn.uniformity, moore.carrot.uniformity, moore.springcauliflower.uniformity, moore.fallcauliflower.uniformity, nonnecke.corn.uniformity, nonnecke.peas.uniformity, parker.orange.uniformity, polson.safflower.uniformity, sawyer.multi.uniformity, smith.beans.uniformity, stickler.sorghum.uniformity, wiedemann.safflower.uniformity","code":""},{"path":"/news/index.html","id":"new-datasets-added-for-stability-1-13","dir":"Changelog","previous_headings":"","what":"New datasets added for stability","title":"agridat 1.13 (2017-11-30)","text":"fisher.barley, lu.stability, tai.potato","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-13","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.13 (2017-11-30)","text":"acorsi.grayleafspot, becker.chicken, chinloy.fractionalfactorial, cramer.cucumber, crampton.pig, battese.survey, christidis.competition, depalluel.sheep. eden.nonnormal, gartner.corn, giles.wheat, gomez.heteroskedastic, gomez.nonnormal1, gomez.nonnormal2, gomez.nonnormal3, gomez.wetdry, goulden.eggs, goulden.splitsplit, gregory.cotton, hanover.whitepine, harvey.lsmeans, harville.lamb, huehn.wheat, kenward.cattle, kreusler.maize, lehner.soybeanmold, lillemo.wheat, lin.superiority, lin.unbalanced, little.splitblock, mead.lamb, omer.sorghum, onofri.winterwheat, reid.grasses, silva.cotton, urquhart.feedlot, usgs.herbicides, vaneeuwijk.fusarium, vaneeuwijk.nematodes, vaneeuwijk.drymatter, wheatley.carrot","code":""},{"path":"/news/index.html","id":"other-notes-1-13","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.13 (2017-11-30)","text":"following data objects changed lists 2 matrices tidy dataframes: aastveit.barley, box.cork, ortiz.tomato, talbot.potato, vargas.txe, vargas.wheat1, vargas.wheat2 Checked aspect ratio field plot heatmaps possible. devtools::run_examples() now works even without suggested packages installed. Changed extensions inst/files .bug .jag . Changed hyperlinks plain text (faster checking, avoids re-direct errors). Replaced use gam package examples, favor mgcv package. Added package logo github.","code":""},{"path":"/news/index.html","id":"agridat-112-2015-06-29","dir":"Changelog","previous_headings":"","what":"agridat 1.12 (2015-06-29)","title":"agridat 1.12 (2015-06-29)","text":"CRAN release: 2015-06-29","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-12","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.12 (2015-06-29)","text":"cochran.beets cochran.lattice jansen.apple jansen.carrot","code":""},{"path":"/news/index.html","id":"agridat-111-2015-03-03","dir":"Changelog","previous_headings":"","what":"agridat 1.11 (2015-03-03)","title":"agridat 1.11 (2015-03-03)","text":"CRAN release: 2015-03-03","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-11","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.11 (2015-03-03)","text":"besag.beans besag.triticale burgeuno.alpha burgueno.rowcol burgueno.unreplicated steptoe.morex.pheno","code":""},{"path":"/news/index.html","id":"other-1-11","dir":"Changelog","previous_headings":"","what":"Other","title":"agridat 1.11 (2015-03-03)","text":"Removed asreml package Suggests (due CRAN check problems).","code":""},{"path":"/news/index.html","id":"agridat-110-2014-11-26","dir":"Changelog","previous_headings":"","what":"agridat 1.10 (2014-11-26)","title":"agridat 1.10 (2014-11-26)","text":"CRAN release: 2014-11-26","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-10","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.10 (2014-11-26)","text":"beaven.barley, perry.springwheat, ridout.appleshoots","code":""},{"path":"/news/index.html","id":"other-1-10","dir":"Changelog","previous_headings":"","what":"Other","title":"agridat 1.10 (2014-11-26)","text":"Move packages Depends Imports.","code":""},{"path":"/news/index.html","id":"agridat-19-2014-07-02","dir":"Changelog","previous_headings":"","what":"agridat 1.9 (2014-07-02)","title":"agridat 1.9 (2014-07-02)","text":"CRAN release: 2014-07-02","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-9","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.9 (2014-07-02)","text":"beall.webworms, besag.endive, brandt.switchback, butron.maize, carlson.germination, cochran.factorial, connolly.potato, cornelius.maize, cullis.earlygen, fisher.latin, foulley.calving, fox.wheat, gomez.splitplot.subsample, goulden.latin, gumpertz.pepper, harrison.priors, hazell.vegetables, heady.fertilizer, holland.arthropods, hunter.corn, jansen.strawberry, kalamkar.potato.uniformity, kang.maize, kang.peanut, karcher.turfgrass, keen.potatodamage, lasrosas.corn, lee.potatoblight, lonnquist.maize, lucas.switchback, maindonald.barley, mead.cauliflower, mercer.mangold.uniformity, patterson.switchback, piepho.cocksfoot, sinclair.clover, snijders.fusarium, stirret.borers, theobald.barley, turner.herbicide, vargas.txe, vold.longterm, wallace.iowaland, walsh.cottonprice, wassom.brome.uniformity, welch.bermudagrass, weiss.incblock, weiss.lattice, yang.barley","code":""},{"path":"/news/index.html","id":"other-1-9","dir":"Changelog","previous_headings":"","what":"Other","title":"agridat 1.9 (2014-07-02)","text":"Use (require(lme4)) examples. B.Ripley request. data (almost) now example graphic.","code":""},{"path":"/news/index.html","id":"agridat-18-2013-09-23","dir":"Changelog","previous_headings":"","what":"agridat 1.8 (2013-09-23)","title":"agridat 1.8 (2013-09-23)","text":"CRAN release: 2013-09-23","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-8","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.8 (2013-09-23)","text":"brandle.rape salmon.bunt","code":""},{"path":"/news/index.html","id":"agridat-17-2013-09-06","dir":"Changelog","previous_headings":"","what":"agridat 1.7 (2013-09-06)","title":"agridat 1.7 (2013-09-06)","text":"CRAN release: 2013-09-06","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-7","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.7 (2013-09-06)","text":"baker.barley.uniformity bliss.borers bond.diallel harris.wateruse hayman.tobacco holshouser.splitstrip pearce.apple waynick.soil","code":""},{"path":"/news/index.html","id":"agridat-16-2013-06-04","dir":"Changelog","previous_headings":"","what":"agridat 1.6 (2013-06-04)","title":"agridat 1.6 (2013-06-04)","text":"CRAN release: 2013-06-04","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-6","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.6 (2013-06-04)","text":"crossa.wheat, garber.multi.uniformity, gomez.nitrogen, harris.multi.uniformity, hughes.grapes, li.millet.uniformity, odland.soybean.uniformity, odland.soyhay.uniformity, ratkowsky.onions, stephens.sorghum.uniformity","code":""},{"path":"/news/index.html","id":"agridat-15-2013-04-26","dir":"Changelog","previous_headings":"","what":"agridat 1.5 (2013-04-26)","title":"agridat 1.5 (2013-04-26)","text":"CRAN release: 2013-04-26","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-5","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.5 (2013-04-26)","text":"adugna.sorghum, ars.earlywhitecorn96, besag.bayesian, box.cork, broadbalk.wheat, byers.apple, caribbean.maize, carmer.density, cate.potassium, cleveland.soil, cochran.eelworms, cochran.wireworms, fan.stability, gomez.seedrate, gotway.hessianfly, goulden.barley.uniformity, henderson.milkfat, hernandez.nitrogen, hessling.argentina, immer.sugarbeet.uniformity, ivins.herbs, jenkyn.mildew, johnson.blight, lambert.soiltemp, lavoranti.eucalyptus, lyon.potato.uniformity, lyons.wheat, mead.cowpeamaize, mead.germination, minnesota.barley.weather, minnesota.barley.yield, nebraska.farmincome, nass.barley, nass.corn, nass.cotton, nass.hay, nass.rice, nass.sorghum, nass.soybean, nass.wheat, ortiz.tomato, pacheco.soybean, senshu.rice, snedecor.asparagus, streibig.competition, zuidhof.broiler","code":""},{"path":"/news/index.html","id":"agridat-14-2012-03-14","dir":"Changelog","previous_headings":"","what":"agridat 1.4 (2012-03-14)","title":"agridat 1.4 (2012-03-14)","text":"CRAN release: 2012-03-14","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-4","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.4 (2012-03-14)","text":"archbold.apple, blackman.wheat, cochran.crd, cochran.latin, darwin.maize, denis.ryegrass, digby.jointregression, engelstad.nitro, federer.diagcheck, gilmour.slatehall, john.alpha, ilra.sheep, kempton.slatehall, ryder.groundnut, vsn.lupin3","code":""},{"path":"/news/index.html","id":"agridat-13-2011-10-20","dir":"Changelog","previous_headings":"","what":"agridat 1.3 (2011-10-20)","title":"agridat 1.3 (2011-10-20)","text":"CRAN release: 2011-10-20","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-3","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.3 (2011-10-20)","text":"bridges.cucumber, cox.stripsplit, diggle.cow, eden.potato, gauch.soy, graybill.heteroskedastic, hildebrand.systems, hanks.sprinkler, mcconway.turnip, pearl.kernels, williams.barley.uniformity, williams.cotton.uniformity","code":""},{"path":"/news/index.html","id":"agridat-12-2011-06-30","dir":"Changelog","previous_headings":"","what":"agridat 1.2 (2011-06-30)","title":"agridat 1.2 (2011-06-30)","text":"CRAN release: 2011-06-30","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-2","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.2 (2011-06-30)","text":"aastveit.barley, gathmann.bt, kempton.competition, wedderburn.barley","code":""},{"path":"/news/index.html","id":"agridat-10-2011-04-27","dir":"Changelog","previous_headings":"","what":"agridat 1.0 (2011-04-27)","title":"agridat 1.0 (2011-04-27)","text":"First release CRAN","code":""},{"path":"/news/index.html","id":"new-datasets-added-1-0","dir":"Changelog","previous_headings":"","what":"New datasets added","title":"agridat 1.0 (2011-04-27)","text":"allcroft.lodging, australia.soybean, batchelor.apple.uniformity, batchelor.lemon.uniformity, batchelor.navel1.uniformity, batchelor.navel2.uniformity, batchelor.valencia.uniformity, batchelor.walnut.uniformity, besag.elbatan, besag.met, cochran.bib, corsten.interaction, crowder.germination, denis.missing, durban.competition, durban.rowcol, durban.splitplot, federer.tobacco, gilmour.serpentine, gomez.fractionalfactorial, gomez.groupsplit, gomez.multilocsplitplot, gomez.splitsplit, gomez.stripplot, gomez.stripsplitplot, gomez.rice.uniformity, hughes.grapes, kempton.rowcol, kempton.barley.uniformity, mead.strawberry, mercer.wheat.uniformity, rothamsted.brussels, shafii.rapeseed, smith.uniformity3, stroup.nin, stroup.splitplot, student.barley, talbot.potato, theobald.covariate, thompson.cornsoy, vargas.wheat1, vargas.wheat2, verbyla.lupin, williams.trees, wiebe.wheat.uniformity, yan.winterwheat, yates.missing, yates.oats","code":""},{"path":"/news/index.html","id":"agridat-00-2010-10-01","dir":"Changelog","previous_headings":"","what":"agridat 0.0 (2010-10-01)","title":"agridat 0.0 (2010-10-01)","text":"Development begins","code":""}]
+[{"path":"/LICENSE.html","id":null,"dir":"","previous_headings":"","what":"MIT License","title":"MIT License","text":"Copyright (c) 2023 agridat authors Permission hereby granted, free charge, person obtaining copy software associated documentation files (“Software”), deal Software without restriction, including without limitation rights use, copy, modify, merge, publish, distribute, sublicense, /sell copies Software, permit persons Software furnished , subject following conditions: copyright notice permission notice shall included copies substantial portions Software. SOFTWARE PROVIDED “”, WITHOUT WARRANTY KIND, EXPRESS IMPLIED, INCLUDING LIMITED WARRANTIES MERCHANTABILITY, FITNESS PARTICULAR PURPOSE NONINFRINGEMENT. EVENT SHALL AUTHORS COPYRIGHT HOLDERS LIABLE CLAIM, DAMAGES LIABILITY, WHETHER ACTION CONTRACT, TORT OTHERWISE, ARISING , CONNECTION SOFTWARE USE DEALINGS SOFTWARE.","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"rothamsted-library","dir":"Articles","previous_headings":"Other","what":"Rothamsted Library","title":"Additional sources of agricultural data","text":"https://www.rothamsted.ac.uk/library--information-services now scanned PDFs put GitHub repository agridat package. Box uniformity trial data","code":"STATS17  WG Cochran   1. Uniformity trial data.  2. Genstat data. Data received since publication of the catalogue.  1935-1943.  3. Uniformity trial data.  1930-1936.  4. Uniformity trials.  1936-1938.  5. Uniformity trials.  R data.  1936-1937.  6. O. V. S. Heath.  Cotton uniformity trial data.  1934-1935.  7. Data.  Yields of grain per foot length.  1934.  8. Catalogue of field uniformity trial data.  N. d.  9. Demandt.  1931. One box"},{"path":[]},{"path":"/articles/agridat_data.html","id":"die-landwirtschaftlichen-versuchs-stations","dir":"Articles","previous_headings":"Books","what":"“Die Landwirtschaftlichen Versuchs-Stations”","title":"Additional sources of agricultural data","text":"https://catalog.hathitrust.org/Record/000549685 Full view research station reports 1859-1920. German.","code":""},{"path":"/articles/agridat_data.html","id":"d--f--andrews-and-a--m--herzberg-1985--data-","dir":"Articles","previous_headings":"Books","what":"D. F. Andrews and A. M. Herzberg (1985). “Data”.","title":"Additional sources of agricultural data","text":"https://www2.stat.duke.edu/courses/Spring01/sta114/data/andrews.html","code":"Table  2.1: agridat::darwin.maize  Table  5.1: agridat::broadbalk.wheat  Table  6.1: agridat::mercer.wheat.uniformity  Table  6.2: agridat::wiebe.wheat.uniformity  Table 58.1: agridat::caribbean.maize"},{"path":"/articles/agridat_data.html","id":"gemechu-application-of-spatial-mixed-model-in-agricultural-field-experiment","dir":"Articles","previous_headings":"Books","what":"Gemechu, “Application of Spatial Mixed Model in Agricultural Field Experiment”","title":"Additional sources of agricultural data","text":"Dibaba Bayisa Gemechu Aweke, Girma (maybe Girma Taye) Master thesis. Department Statistics, Addis Ababa University. One dataset wheat, RCB, field coordinates. Note: Forkman cites author “D. Bayisa”","code":""},{"path":"/articles/agridat_data.html","id":"m--n--das-narayan-c--giri-1987--design-and-analysis-of-experiments-","dir":"Articles","previous_headings":"Books","what":"M. N. Das & Narayan C. Giri (1987). “Design and Analysis of Experiments”.","title":"Additional sources of agricultural data","text":"","code":"31 wool from 24 ewes, 6 cuttings 116 grass NPK factorial, 3 years, 36 obs 116 2^5 factorial, 1 rep, 32 obs 117 2^3 factorial, 3 rep 117 sugar beet 3^3 factorial, 2 rep, 54 obs 139 alfalfa 3x2^2 factorial 149 cabbage NPK split-plot, xy, 2 rep, 108 obs 150 soybean nitro-variety split-plot 193 wheat variety inc block, 9 block 201 rice variety balanced lattice, 80 obs 279 maize covariate, yield & plant count, 4 rep, 32 obs"},{"path":"/articles/agridat_data.html","id":"peter-diggle-patrick-heagerty-kung-yee-liang-scott-zeger--analysis-of-longitudinal-data-","dir":"Articles","previous_headings":"Books","what":"Peter Diggle, Patrick Heagerty, Kung-Yee Liang, Scott Zeger. “Analysis of Longitudinal Data”.","title":"Additional sources of agricultural data","text":"https://faculty.washington.edu/heagerty/Books/AnalysisLongitudinal/datasets.html Pig weight data found SemiPar::pig.weights Sitka spruce data found : geepack::spruce Milk protein data found : nlme::Milk. thorough description data can found Molenberghs & Kenward, “Missing Data Clinical Studies”, p. 377. Original source: . P. Verbyla B. R. Cullis, Modelling Repeated Measures Experiments.","code":""},{"path":"/articles/agridat_data.html","id":"federer-walt-1955--experimental-design-","dir":"Articles","previous_headings":"Books","what":"Federer, Walt (1955). “Experimental Design”.","title":"Additional sources of agricultural data","text":"","code":"192 3x3 factorial  204 3x2 factorial  236 2x2x2 factorial with confounding  257 2x3x2 factorial with confounding  276 split-plot with layout  285 nested multi-loc (Also problems page 22)  350 cubic lattice  420 balanced inc block  491 Latin square with covariate"},{"path":"/articles/agridat_data.html","id":"finney-1972--an-introduction-to-statistical-science-in-agriculture-","dir":"Articles","previous_headings":"Books","what":"Finney 1972. “An Introduction to Statistical Science in Agriculture”.","title":"Additional sources of agricultural data","text":"Small, mostly simulated data.","code":""},{"path":"/articles/agridat_data.html","id":"galwey-n-w--2014--introduction-to-mixed-modelling-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Galwey, N.W. (2014). “Introduction to Mixed Modelling”, 2nd ed.","title":"Additional sources of agricultural data","text":"https://www.wiley.com/en-us/Introduction++Mixed+Modelling%3A+Beyond+Regression++Analysis++Variance%2C+2nd+Edition-p-9781119945499","code":"2  83 variety x nitro split-plot - agridat::yates.oats  3 104 doubled-haploid barley  3 135 wheat/rye competition, heritability  5 190 chickpea flowering in families  7 250 canola oil gxe, sowing date, rainfall, oil.  Si & Walton 2004.  7 284 pig growth, 4 diets  7 285 sheep milk fat and lactose  7 290 wheat anoxia root porosity, 9 gen  7 291 wool fibers, 3 trt, 21 animals  9 370 alphalpha design (row-column inc block for 2 reps) (not latinized row col) 10 434 hollamby wheat trial - agridat::gilmour.serpentine"},{"path":"/articles/agridat_data.html","id":"grover-deepak-lajpat-rai--experimental-designing-and-data-analysis-in-agriculture-and-biology-","dir":"Articles","previous_headings":"Books","what":"Grover, Deepak & Lajpat Rai. “Experimental Designing And Data Analysis In Agriculture And Biology”.","title":"Additional sources of agricultural data","text":"Agrotech Publishing Academy, 2010. https://archive.org/details/expldesnanddatanalinagblg00023","code":"43 Percent insect survival in 12 rice varieties, 3 reps 50 CRD 57 RCBD 67 Latin Square 85 Sampling, 4 rep, 9 trt, 4 sub-samples agridat::grover.rcb.subsample 88 Split-plot, 3 rep, 2 measurements/plot, plant height (unusual subsample example) 97 Missing plot 105 Latin square with missing plot 115 2^2 factorial, 6 block 118 2^3 factorial, 3 block 120 Two factor asymmetrical, 5 rep 140 2^3 fractional factorial, 3 rep 160 Split-plot (planting date, variety), 3 rep 168 Strip-plot, 3 rep  176 Milk yield with covariate 188 Multi-year nitrogen treatment 197 BIBD 13 varieties 205 Lattice 4 blocks, 3 reps, 16 trt 226 Augmented BIBD 236 Group-divisible 239 PBIB 241 Augmented group-divisible 245 Augmented PBIB 250 6x6 full diallel, 4 rep   agridat::grover.diallel"},{"path":"/articles/agridat_data.html","id":"o-v-s--heath-1970--investigation-by-experiment-","dir":"Articles","previous_headings":"Books","what":"O.V.S. Heath (1970). “Investigation by experiment”.","title":"Additional sources of agricultural data","text":"https://archive.org/details/investigationbye0000heat","code":"23 uniformity trial of radish - agridat::heath.raddish.uniformity 50 uniformity trial of cabbage - agridat::heath.cabbage.uniformity"},{"path":"/articles/agridat_data.html","id":"kwanchai-a--gomez-gomez-1984--statistical-procedures-for-agricultural-research-","dir":"Articles","previous_headings":"Books","what":"Kwanchai A. Gomez & Gomez (1984). “Statistical Procedures for Agricultural Research”.","title":"Additional sources of agricultural data","text":"Extensive collection datasets rice experiments. Many added agridat.","code":""},{"path":"/articles/agridat_data.html","id":"cyril-h--goulden-1939-methods-of-statistical-analysis-","dir":"Articles","previous_headings":"Books","what":"Cyril H. Goulden (1939), “Methods of Statistical Analysis”.","title":"Additional sources of agricultural data","text":"First edition: https://archive.org/details/methodsofstatist031744mbp Second edition: http://krishikosh.egranth.ac./handle/1/2034118 (broken)","code":"18 Uniformity trial - agridat::goulden.barley.uniformity  153 Split-split plot with factorial sub-plot treatment - agridat::goulden.splitsplit  194 Incomplete block  197 Inc block  205 Latin square  208 Inc block  255 Covariates in feeding trial - agridat::crampton.pig 216 Latin square - agridat::goulden.latin  423 Control chart with egg weights - agridat::goulden.eggs"},{"path":"/articles/agridat_data.html","id":"harry-love-1936--applications-of-statistical-methods-to-agricultural-research-","dir":"Articles","previous_headings":"Books","what":"Harry Love (1936). “Applications of Statistical Methods to Agricultural Research”.","title":"Additional sources of agricultural data","text":"","code":"379 MET 4 year, 2 field, 5 block, 5 gen"},{"path":[]},{"path":"/articles/agridat_data.html","id":"kuehl-robert--design-of-experiments-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Kuehl, Robert. “Design of Experiments”, 2nd ed.","title":"Additional sources of agricultural data","text":"","code":"357 alfalfa quadruple lattice 358 alpha design 488 split-plot sorghum hybrid,density 516 alfalfa rcb, two-year 521 crossover design cattle feedstuff"},{"path":"/articles/agridat_data.html","id":"erwin-leclerg-warren-leonard-andrew-clark-1962--field-plot-technique","dir":"Articles","previous_headings":"Books","what":"Erwin LeClerg, Warren Leonard, Andrew Clark (1962). “Field Plot Technique”","title":"Additional sources of agricultural data","text":"https://archive.org/details/fieldplottechniq00leon Many small datasets.","code":"27 uniformity - agridat::goulden.barley.uniformity 213 split-plot 234 immer multi-environment 260 lattice pinto-bean 276 triple lattice cotton 280 lattice sugar beet 289 balanced lattice 336 repeated wheat"},{"path":"/articles/agridat_data.html","id":"thomas-m-little-f--jackson-hills-1978--agricultural-experimentation-","dir":"Articles","previous_headings":"Books","what":"Thomas M Little & F. Jackson Hills (1978). “Agricultural Experimentation”.","title":"Additional sources of agricultural data","text":"","code":"79 Latin square   89 Split-plot  103 Split-split  117 Split-block - agridat::little.splitblock  126 Repeated harvests.  In data-unused. 144 Non-IID errors 155 Square root transform 158 Germination, 3 reps, 24 treatments 261 Response surface, nitrogen, harvest 277 Count data"},{"path":"/articles/agridat_data.html","id":"harald-martens-magni-martens--multivariate-analysis-of-quality","dir":"Articles","previous_headings":"Books","what":"Harald Martens & Magni Martens. “Multivariate Analysis of Quality”","title":"Additional sources of agricultural data","text":"https://www.wiley.com/legacy/wileychi/chemometrics/datasets.html ‘NIR’ data NIR spectra measurements wheat purpose understanding protein quality.","code":""},{"path":"/articles/agridat_data.html","id":"roger-mead-robert-n--curnow-anne-m--hasted-2002--statistical-methods-in-agriculture-and-experimental-biology-3rd-ed-","dir":"Articles","previous_headings":"Books","what":"Roger Mead, Robert N. Curnow, Anne M. Hasted (2002). “Statistical Methods in Agriculture and Experimental Biology”, 3rd ed.","title":"Additional sources of agricultural data","text":"","code":"10 weekly milk yields  24 carrot weight  96 cabbage fertilizer 143 intercropping cowpea maize 177 honeybee repellent non-normal 251 cauliflower poisson - agridat::mead.cauliflower 273 rhubarb RCB covariate 296 onion density 316 lambs 341 germination 350 germination factorial - agridat::mead.germination 352 poppy 359 lamb loglinear - agridat::mead.lambs 375 rats 386 intercrop 390 intercrop cowpea maize - agridat::mead.cowpeamaize 404 apple characteristics (incomplete)"},{"path":"/articles/agridat_data.html","id":"roger-mead-1988--the-design-of-experiments","dir":"Articles","previous_headings":"Books","what":"Roger Mead (1988). “The Design of Experiments”","title":"Additional sources of agricultural data","text":"https://books.google.com/books?id=CaFZPbCllrMC&pg=PA323","code":"323 Turnip spacing data - agridat::mead.turnip"},{"path":"/articles/agridat_data.html","id":"leonard-c--onyiah-2008-","dir":"Articles","previous_headings":"Books","what":"Leonard C. Onyiah (2008).","title":"Additional sources of agricultural data","text":"“Design Analysis Experiments: Classical Regression Approaches SAS”. https://books.google.com/books?id=_P3LBQAAQBAJ&pg=PA334","code":"334 Two examples of 5x5 Graeco-Latin squares in cassava and maize"},{"path":"/articles/agridat_data.html","id":"bernard-ostle-1963--statistics-in-research-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Bernard Ostle (1963). “Statistics in Research”, 2nd ed.","title":"Additional sources of agricultural data","text":"https://archive.org/details/secondeditionsta001000mbp","code":"455 2 factors, 1 covariate - agridat::woodman.pig 458 1 factor, 2 covariates - agridat::crampton.pig"},{"path":"/articles/agridat_data.html","id":"v--g--panse-and-p--v--sukhatme-1957--statistical-methods-for-agricultural-workers-","dir":"Articles","previous_headings":"Books","what":"V. G. Panse and P. V. Sukhatme (1957). “Statistical Methods for Agricultural Workers”.","title":"Additional sources of agricultural data","text":"Note: 1954 edition can found https://archive.org/details/dli.scoerat.949statisticalmethodsforagriculturalworkers/page/138/mode/2up","code":"3 Length and number of grains per ear of wheat 138 Uniformity trial - agridat::panse.cotton.uniformity 154 RCB 8 blocks 167 two factorial, 6 rep trial 178 2^4 factorial, 8 blocks, partial confounding 192 3^3 factorial, 3 reps/9 blocks, partial confounding 200 split-plot, 6 rep 212 strip-plot, 6 rep 219 cotton variety trial, yield & stand counts 256 8x8 simpple lattice, 4 reps 282 5 varieties at 6 locations 295 5 N levels at 5 locations 332 4 regions, 9-11 villages in each region, 3 fertilizer treatments"},{"path":"/articles/agridat_data.html","id":"d--d--paterson-1939--statistical-technique-in-agricultural-research-","dir":"Articles","previous_headings":"Books","what":"D. D. Paterson (1939). “Statistical Technique in Agricultural Research”.","title":"Additional sources of agricultural data","text":"https://archive.org/details/statisticaltechn031729mbp","code":"84 Distribution of purple/white starchy/sweet seeds from 11 ears 190 Sugar cane MET: 2 year, 5 block, 5 variety 199 Tea MET: 3 year, 2^2 factorial fertilizer 206 Grass: 4 rep, 2 gen, 4 cutting treatments 211 Cotton: 4 dates, 3 spacings, 3 irrigation, 2 nitro - agridat::gregory.cotton"},{"path":"/articles/agridat_data.html","id":"roger-petersen-agricultural-field-experiments","dir":"Articles","previous_headings":"Books","what":"Roger Petersen, “Agricultural Field Experiments”","title":"Additional sources of agricultural data","text":"","code":"8 Uniformity trial 18 * 6 plots 56 RCB 4 rep, 5 trt 71 Latin square 5x5 86 Factorial 4x2, 3 rep 97 Factorial 2x3x2, 3 rep 125 Fertilizer trial, 3 rep, 5 levels 136 Split plot variety x planting date, 3 rep 148 Strip plot 2 potash x 3 potassium, 3 rep 170 Augmented breeding trial with 3 checks, 6 inc blocks 174 Inc Block 182 Lattice 5x5, 2 rep 192 GxE 10 gen, 12 env. Stability analysis. 208 Factorial 2x3 at 8 locs, homogeneous variance, early lentils 217 GxE 8 gen, 5 loc, heterogeneous variance 232 Factorial 2x3 at 8 locs, late lentils (see also page 208) 249 On-farm trial, 24 entries, 3 rep RCB 257 Demonstration trials, 5 locs 272 Covariance example, RCB 6 rep, 4rt 278 Multi-year 2x2 factorial, 4 rep 309 Pasture trial 323 On-farm trial, 2 variety 8 loc 327 On-farm trial 6 trt, 5 loc 334 On-farm trial 4 trt, 6 loc 343 On-farm trial 2x3 factorial, 3 loc 351 Feeding trial, 2 trt, 2 periods 357 Intercrop, 2 crops 372 Intercrop, 2 crop, 4 mixtures, 4 rep. agridat::petersen.sorghum.cowpea"},{"path":"/articles/agridat_data.html","id":"richard-plant-spatial-data-analysis-in-ecology-and-agriculture-using-r","dir":"Articles","previous_headings":"Books","what":"Richard Plant, “Spatial Data Analysis in Ecology and Agriculture using R”","title":"Additional sources of agricultural data","text":"https://psfaculty.plantsciences.ucdavis.edu/plant/","code":""},{"path":"/articles/agridat_data.html","id":"arthur-asquith-rayner-1969--a-first-course-in-biometry-for-agriculture-students-","dir":"Articles","previous_headings":"Books","what":"Arthur Asquith Rayner (1969). “A First Course In Biometry For Agriculture Students”.","title":"Additional sources of agricultural data","text":"","code":"19 456 2x2x4 Factorial, 2 rep 19 466 2x4 factorial, layout, plot size, kale (from Rothamsted) 19 466 3x5 factorial, 3 rep, potato 20 494 3x4 Split-plot with layout 21 505 2x2x2 Factorial, 5 rep 21 515 2x2x2x2 Factorial, 3 rep, with layout. (Evaluated, rejected as too variable) 22 537 2x2x2 factorial, 6 rep, potato 22 537 2x2x2x2 factorial, 2 rep, wheat, layout"},{"path":"/articles/agridat_data.html","id":"f-s-f--shaw-1936--a-handbook-of-statistics-for-use-in-plant-breeding-and-agricultural-problems","dir":"Articles","previous_headings":"Books","what":"F.S.F. Shaw (1936). “A Handbook of Statistics For Use in Plant Breeding and Agricultural Problems”","title":"Additional sources of agricultural data","text":"https://archive.org/details/.ernet.dli.2015.176662","code":"5 Length of ear head and number of grains per ear, 400 ears. 95 variety RCB, 5 gen, 25 rep, diagonal layout 107 Latin square, 8 entries. 117 Factorial: 8 blocks, 3 varieties, 5 treatments, 2 infections 126 Multi-environment trial, 3 year, 13 varieties, 2 loc, 5 blocks  agridat::shaw.oats"},{"path":"/articles/agridat_data.html","id":"g--w--snedecor-w--g--cochran--statistical-methods-","dir":"Articles","previous_headings":"Books","what":"G. W. Snedecor & W. G. Cochran. “Statistical Methods”.","title":"Additional sources of agricultural data","text":"","code":"168 regression 352 3x3 factorial, 4 blocks 359 2x2x2 factorial, 8 blocks, daily pig gain 362 2x3x4 factorial, 2 blocks, daily pig gain 371 3x4 split-plot, 3 var, 4 date, 6 blocks 374 2x3x3 split-split-plot, irrig, stand, fert, block 378 4x4 split-plot, 4 block, 4 year, 4 cuttings asparagus 384 regression with 2 predictors 428 covariates, 6 varieties, 4 blocks, yield vs stand 440 pig gain vs initial weight, 4 treatments, 40 pigs 454 protein vs yield for wheat, 91 plots, quadratic regression"},{"path":"/articles/agridat_data.html","id":"robert-g--d--steel-james-hiram-torrie--principles-and-procedures-of-statistics-2nd-ed-","dir":"Articles","previous_headings":"Books","what":"Robert G. D. Steel & James Hiram Torrie. “Principles and Procedures of Statistics”, 2nd ed.","title":"Additional sources of agricultural data","text":"","code":"154 Mint plant growth, 2-way + pot + plant 244 Trivariate data 319 Regression with three predictors 384 Split-plot yield 387 Split-plot row spacing 400 Soybean 3 loc 423 Pig weight gain 429 Guinea pig weight gain 434 Soybean lodging"},{"path":"/articles/agridat_data.html","id":"oliver-schabenberger-and-francis-j--pierce--contemporary-statistical-models-for-the-plant-and-soil-sciences-","dir":"Articles","previous_headings":"Books","what":"Oliver Schabenberger and Francis J. Pierce. “Contemporary Statistical Models for the Plant and Soil Sciences”.","title":"Additional sources of agricultural data","text":"Many datasets. added agridat.","code":""},{"path":"/articles/agridat_data.html","id":"s--j--welham-et-al--2015--statistical-methods-in-biology-","dir":"Articles","previous_headings":"Books","what":"S. J. Welham et al. (2015). “Statistical Methods In Biology”.","title":"Additional sources of agricultural data","text":"online-supplements contain many small datasets examples exercises.","code":""},{"path":"/articles/agridat_data.html","id":"pesticides-in-the-nations-streams-and-ground-water-1992-2001","dir":"Articles","previous_headings":"Books","what":"Pesticides in the Nation’s Streams and Ground Water, 1992-2001","title":"Additional sources of agricultural data","text":"Extensive data detection pesticides water samples. See Appendix 5 Appendix 6 supporting info. https://water.usgs.gov/nawqa/pnsp/pubs/circ1291/supporting_info.php","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"ag-data-commons","dir":"Articles","previous_headings":"Data Repositories","what":"Ag Data Commons","title":"Additional sources of agricultural data","text":"https://data.nal.usda.gov/-ag-data-commons https://data.nal.usda.gov/search/type/dataset","code":""},{"path":"/articles/agridat_data.html","id":"cyverse-data-commons","dir":"Articles","previous_headings":"Data Repositories","what":"CyVerse Data Commons","title":"Additional sources of agricultural data","text":"https://datacommons.cyverse.org/ https://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"harvard-dataverse","dir":"Articles","previous_headings":"Data Repositories","what":"Harvard Dataverse","title":"Additional sources of agricultural data","text":"https://dataverse.harvard.edu/ IRRI Rice Research includes plot-level data long term rice experiments. https://dataverse.harvard.edu/dataverse/RiceResearch","code":""},{"path":"/articles/agridat_data.html","id":"kellogg-biological-station-long-term-research","dir":"Articles","previous_headings":"Data Repositories","what":"Kellogg Biological Station Long-Term Research","title":"Additional sources of agricultural data","text":"KBS037:Precision Agriculture Yield Monitoring Row Crop Agriculture https://lter.kbs.msu.edu/datasets/40 https://doi.org/10.6073/pasta/423c07d6ea3317c545beabb4b8e502c8 Yield monitor data across several years crops. Un-friendly license.","code":""},{"path":"/articles/agridat_data.html","id":"nature-scientific-data","dir":"Articles","previous_headings":"Data Repositories","what":"Nature Scientific Data","title":"Additional sources of agricultural data","text":"https://www.nature.com/sdata/","code":""},{"path":"/articles/agridat_data.html","id":"open-data-journal-for-agricultural-research","dir":"Articles","previous_headings":"Data Repositories","what":"Open Data Journal for Agricultural Research","title":"Additional sources of agricultural data","text":"https://library.wur.nl/ojs/index.php/odjar/","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"wolfram-data-repository","dir":"Articles","previous_headings":"Data Repositories","what":"Wolfram Data Repository","title":"Additional sources of agricultural data","text":"https://datarepository.wolframcloud.com/","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"iowa-state-agricultural-research-bulletins","dir":"Articles","previous_headings":"Journals - Bulletins","what":"Iowa State Agricultural Research Bulletins","title":"Additional sources of agricultural data","text":"https://lib.dr.iastate.edu/ag_researchbulletins/","code":"Vol 26/ 281. Cox: Analysis of Lattice and Triple Lattice. Page 11: Lattice, 81 hybs, 4 reps  Page 24: Triple lattice, 81 hybs, 6 reps  Vol 29/347. Homeyer. Punched Card and Calculating Machine Methods for Analyzing    Lattice Experiments Including Lattice Squares and the Cubic Lattice. Page 37: Triple lattice (9 blocks * 9 hybrids) with 6 reps. Page 60: Simple lattice, 8 blocks * 8 hybrids, 4 reps. Page 76: Balanced lattice, 25 hybrids  Page 87: Lattice square with (k+1)/2 reps, 121 hybrids, 6 rep  Page 109: Lattice square with k+1 reps, 7 blocks * 7 hyb, 8 reps  Page 126: Cubic lattice, 16 blocks * 4 plots = 64 varieties, 9 reps, cotton  Vol 32/396. Wassom. Bromegrass Uniformity Trial: agridat::wassom.bromegrass.uniformity  Vol 33/424. Heady. Crop Response Surfaces and Economic Optima in    Fertilizer - agridat::heady.fertilizer  Vol 34/358. Schwab. Research on Irrigation of Corn and Soybeans At Conesville. Page 257. 2 year, 2 loc, 4 rep, 2 nitro. Stand & yield.   Nice graph of soil moisture deficit (fig 9)  Vol. 34/463. Doll. Fertilizer Production Functions for Corn and Oats. Table 1, 1954 Clarion Loam.  N,P,K. Table 14, 1955 McPaul Silt Loam.  N,P. Table 25, 1955 corn.  K,P,N. Table 31, 1956 oats, K,P,N.  Trends difficult to establish.  Vol 34/472. Pesek. Production Surfaces and Economic Optima For Corn Yields.   Same data published in SSA journal?  Vol 34/488. Walker. Application of Game Theory Models to Decisions.  Vol 35/494. North Central Regional Potassium Studies with Alfalfa. Page 176. Two years, several locs per state, multiple states, multiple fertilizer    levels, multiple cuttings. Soil test attributes. Page 183. Yield and %K.  Vol 35/503. North Central Regional Potassium Studies with Corn."},{"path":[]},{"path":"/articles/agridat_data.html","id":"bakare-et-al","dir":"Articles","previous_headings":"Papers","what":"Bakare et al","title":"Additional sources of agricultural data","text":"Exploring genotype environment interaction cassava yield yield related traits using classical statistical methods https://doi.org/10.1371/journal.pone.0268189 36 gen, 20 env, 3 rep. Analysis data : https://github.com/mab658/classical_analysis_GxE","code":""},{"path":"/articles/agridat_data.html","id":"chaves-2023-et-al","dir":"Articles","previous_headings":"Papers","what":"Chaves 2023 et al","title":"Additional sources of agricultural data","text":"Analysis multi-harvest data mixed models: application Theobroma grandiflorum breeding https://acsess.onlinelibrary.wiley.com/doi/epdf/10.1002/csc2.20995 Nice. Complete data R code. found FA3 best genetic covariances, AR1H best residual structure. Used FAST OP (Cullis) selection.","code":""},{"path":"/articles/agridat_data.html","id":"cleveland-m-a--and-john-m--hickey-selma-forni-2012-","dir":"Articles","previous_headings":"Papers","what":"Cleveland, M.A. and John M. Hickey, Selma Forni (2012).","title":"Additional sources of agricultural data","text":"Common Dataset Genomic Analysis Livestock Populations. G3, 2, 429-435. https://doi.org/10.1534/g3.111.001453 supplemental information paper contains data 3534 pigs high-density genotypes (50000 SNPs), pedigree including parents grandparents animals.","code":""},{"path":"/articles/agridat_data.html","id":"coelho-2021-et-al","dir":"Articles","previous_headings":"Papers","what":"Coelho 2021 et al","title":"Additional sources of agricultural data","text":"Accounting spatial trends multi-environment diallel analysis maize breeding https://doi.org/10.1371/journal.pone.0258473 78 hybrids diallel, 4 environments, 3 reps. Compared spatial non-spatial analyses.","code":""},{"path":"/articles/agridat_data.html","id":"daillant-spinnler-1996--relationships-between-perceived-sensory-properties-and-major-preference-directions-of-12-variaties-of-apples-from-the-southern-hemisphere-","dir":"Articles","previous_headings":"Papers","what":"Daillant-Spinnler (1996). Relationships between perceived sensory properties and major preference directions of 12 variaties of apples from the southern hemisphere.","title":"Additional sources of agricultural data","text":"Food Quality Preference, 7(2), 113-126. https://doi.org/10.1016/0950-3293(95)00043-7 data ClustVarLV::apples_sh$pref ClustVarLV::apples_sh$senso 12 apple varieties, 43 traits, 60 consumers","code":""},{"path":"/articles/agridat_data.html","id":"gregory-crowther-lambert-1932--the-interrelation-of-factors-controlling-the-production-of-cotton-under-irrigation-in-the-sudan-","dir":"Articles","previous_headings":"Papers","what":"Gregory, Crowther & Lambert (1932). The interrelation of factors controlling the production of cotton under irrigation in the Sudan.","title":"Additional sources of agricultural data","text":"Jour Agric Sci, 22, p. 617.","code":""},{"path":"/articles/agridat_data.html","id":"hedrick-1920-","dir":"Articles","previous_headings":"Papers","what":"Hedrick (1920).","title":"Additional sources of agricultural data","text":"Twenty years fertilizers apple orchard. https://books.google.com/books?hl=en&lr=&id=SqlJAAAAMAAJ&oi=fnd&pg=PA446 authors found significant differences fertilizer treatments.","code":""},{"path":"/articles/agridat_data.html","id":"meehan-gratton-2016-","dir":"Articles","previous_headings":"Papers","what":"Meehan & Gratton (2016).","title":"Additional sources of agricultural data","text":"Landscape View Agricultural Insecticide Use across Conterminous US 1997 2012. PLOS ONE, https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0166724 Supplemental material contains county-level data 4 years. Complete R-INLA code analysis.","code":""},{"path":"/articles/agridat_data.html","id":"monteverde-et-al","dir":"Articles","previous_headings":"Papers","what":"Monteverde et al","title":"Additional sources of agricultural data","text":"Integrating Molecular Markers Environmental Covariates Interpret Genotype Environment Interaction Rice (Oryza sativa L.) Grown Subtropical Areas https://doi.org/10.1534/g3.119.400064 https://gsajournals.figshare.com/articles/dataset/Supplemental_Material_for_Monteverde_et_al_2019/7685636 Supplemental information contains phenotypic data markers environmental covariates PLS analysis.","code":""},{"path":"/articles/agridat_data.html","id":"kenward-michael-g--1987-","dir":"Articles","previous_headings":"Papers","what":"Kenward, Michael G. (1987).","title":"Additional sources of agricultural data","text":"Method Comparing Profiles Repeated Measurements. Applied Statistics, 36, 296-308. ante-dependence model fit repeated measures cattle weight.","code":""},{"path":"/articles/agridat_data.html","id":"klumper-qaim-2015-","dir":"Articles","previous_headings":"Papers","what":"Klumper & Qaim (2015).","title":"Additional sources of agricultural data","text":"Meta-Analysis Impacts Genetically Modified Crops. https://doi.org/10.1371/journal.pone.0111629 Nice meta-analysis dataset. Published data include differences, standard-errors. See comments PLOS article peculiarities data.","code":""},{"path":"/articles/agridat_data.html","id":"lado-b--et-al--2013-","dir":"Articles","previous_headings":"Papers","what":"Lado, B. et al. (2013).","title":"Additional sources of agricultural data","text":"“Increased Genomic Prediction Accuracy Wheat Breeding Spatial Adjustment Field Trial Data”. G3, 3, 2105-2114. https://doi.org/10.1534/g3.113.007807 large haplotype dataset (83 MB) two-year phenotype data multiple traits.","code":""},{"path":"/articles/agridat_data.html","id":"oakey-cullis-thompson-2016","dir":"Articles","previous_headings":"Papers","what":"Oakey, Cullis, Thompson 2016","title":"Additional sources of agricultural data","text":"Genomic Selection Multi-environment Crop Trials https://www.g3journal.org/content/6/5/1313 http://www.g3journal.org/content/6/5/1313/suppl/DC1 648 genotypes planted pots yr 1, 856 lines yr 2, 639 common years. 7864 SNP markerks","code":""},{"path":"/articles/agridat_data.html","id":"peixoto-marco-antonio-et-al-2020","dir":"Articles","previous_headings":"Papers","what":"Peixoto, Marco Antonio et al (2020)","title":"Additional sources of agricultural data","text":"Random regression modeling yield genetic trajectories Jatropha curcas breeding. https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0244021 Repeated measurements six years. Data supplemental Word doc.","code":""},{"path":"/articles/agridat_data.html","id":"perez-valencia-2022-","dir":"Articles","previous_headings":"Papers","what":"Perez-Valencia (2022).","title":"Additional sources of agricultural data","text":"two‑stage approach spatio‑temporal analysis high‑throughput phenotyping data. https://doi.org/10.1038/s41598-022-06935-9 Time-series data individual plots field many genotypes.","code":""},{"path":"/articles/agridat_data.html","id":"roger-w--hexem-earl-o-heady-metin-caglar-1974","dir":"Articles","previous_headings":"Papers","what":"Roger W. Hexem, Earl O.Heady, Metin Caglar (1974)","title":"Additional sources of agricultural data","text":"compendium experimental data corn, wheat, cotton sugar beets grown selected sites western United States alternative production functions fitted data. Technical report: Center Agricultural Rural Development, Iowa State University. https://babel.hathitrust.org/cgi/pt?id=wu.89031116783;view=1up;seq=3 technical report provides data experiments corn, wheat, cotton & sugar beets, crop tested several locations two years, factorial structure irrigation nitrogen treatments, replications. Three polynomial functions fit data location (quadratic, square root, three-halves).","code":""},{"path":"/articles/agridat_data.html","id":"snedecor-george-and-e--s--haber-1946-","dir":"Articles","previous_headings":"Papers","what":"Snedecor, George and E. S. Haber (1946).","title":"Additional sources of agricultural data","text":"Statistical Methods Incomplete Experiment Perennial Crop. Biometrics Bulletin, 2, 61-67. https://www.jstor.org/stable/3001959 Harvest asparagus 10 years, three cutting dates per year, 6 blocks.","code":""},{"path":"/articles/agridat_data.html","id":"tanaka-takashi-x--t-","dir":"Articles","previous_headings":"Papers","what":"Tanaka, Takashi X. T.","title":"Additional sources of agricultural data","text":"Assessment design analysis frameworks -farm experimentation simulation study wheat yield Japan. https://github.com/takashit754/geostat Yield-monitor data 3 fields.","code":""},{"path":"/articles/agridat_data.html","id":"technow-frank-et-al--2014-","dir":"Articles","previous_headings":"Papers","what":"Technow, Frank, et al. (2014).","title":"Additional sources of agricultural data","text":"Genome Properties Prospects Genomic Prediction Hybrid Performance Breeding Program Maize. August 1, 2014 vol. 197 . 4 1343-1355. https://doi.org/10.1534/genetics.114.165860 Genotype phenotype data appears sommer package.","code":""},{"path":"/articles/agridat_data.html","id":"tian-ting-2015-","dir":"Articles","previous_headings":"Papers","what":"Tian, Ting (2015).","title":"Additional sources of agricultural data","text":"Application Multiple Imputation Missing Values Three-Way Three-Mode Multi-Environment Trial Data. https://doi.org/10.1371/journal.pone.0144370 Uses agridat::australia.soybean data one real dataset 4 traits identified. data code available.","code":""},{"path":"/articles/agridat_data.html","id":"randall-j--wisser-et-al--2011-","dir":"Articles","previous_headings":"Papers","what":"Randall J. Wisser et al. (2011).","title":"Additional sources of agricultural data","text":"Multivariate analysis maize disease resistances suggests pleiotropic genetic basis implicates GST gene. PNAS. https://doi.org/10.1073/pnas.1011739108 supplement contains genotype data, phenotype data.","code":""},{"path":"/articles/agridat_data.html","id":"rife-et-al--2018","dir":"Articles","previous_headings":"Papers","what":"Rife et al. (2018)","title":"Additional sources of agricultural data","text":"Genomic analysis prediction within US public collaborative winter wheat regional testing nursery. https://doi.org/10.5061/dryad.q968v83 Large phenotypic dataset 691 wheat lines, 33 years, 670 environments, 3-4 reps, 120000 datapoints. genotypic data included.","code":""},{"path":"/articles/agridat_data.html","id":"schmitz-carley-et-al-2018","dir":"Articles","previous_headings":"Papers","what":"Schmitz Carley et al (2018)","title":"Additional sources of agricultural data","text":"Genetic Covariance Environments Potato National Chip Processing Trial https://dl.sciencesocieties.org/publications/cs/articles/59/1/107 Supp 2 contains genomic data, easy way find phenotypic data.","code":""},{"path":"/articles/agridat_data.html","id":"van-der-voet-et-al--2017-","dir":"Articles","previous_headings":"Papers","what":"van der Voet et al. (2017).","title":"Additional sources of agricultural data","text":"Equivalence testing using existing reference data: example genetically modified conventional crops animal feeding studies. https://doi.org/10.1016/j.fct.2017.09.044 full datasets GRACE studies -E available : https://www.cadima.info/index.php/area/publicAnimalFeedingTrials CC license.","code":""},{"path":"/articles/agridat_data.html","id":"volpato-et-al-2024","dir":"Articles","previous_headings":"Papers","what":"Volpato et al (2024)","title":"Additional sources of agricultural data","text":"retrospective analysis historical data multi-environment trials dry bean ( Phaseolus vulgaris L.) Michigan. https://github.com/msudrybeanbreeding/DryBean_MultiEnvTrials Full dataset R code.","code":""},{"path":"/articles/agridat_data.html","id":"xavier-alencar-et-al--","dir":"Articles","previous_headings":"Papers","what":"Xavier, Alencar et al..","title":"Additional sources of agricultural data","text":"Genome-Wide Analysis Grain Yield Stability Environmental Interactions Multiparental Soybean Population. https://doi.org/10.1534/g3.117.300300 Data SoyNAM NAM packages.","code":""},{"path":"/articles/agridat_data.html","id":"yan-weikei-2002-","dir":"Articles","previous_headings":"Papers","what":"Yan, Weikei (2002).","title":"Additional sources of agricultural data","text":"Singular value partitioning biplots. Agron Journal. Winter wheat, 31 gen 8 loc. data different Yan’s earlier papers. Unfortunately, data given paper missing two rows.","code":""},{"path":"/articles/agridat_data.html","id":"r-packages-on-cran-github-etc-","dir":"Articles","previous_headings":"","what":"R packages on CRAN, Github, etc.","title":"Additional sources of agricultural data","text":"See also: https://cran.r-project.org/web/views/Agriculture.html","code":""},{"path":"/articles/agridat_data.html","id":"agml","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"AgML","title":"Additional sources of agricultural data","text":"https://github.com/Project-AgML/AgML Datasets agricultural machine learning image classification, semantic segmentation, object detection, etc.","code":""},{"path":"/articles/agridat_data.html","id":"agricensdata","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agriCensData","title":"Additional sources of agricultural data","text":"https://github.com/OnofriAndreaPG/agriCensData Three datasets censored observations paper “Analyzing interval-censored data agricultural research: review examples software tips”.","code":""},{"path":"/articles/agridat_data.html","id":"agritutorial","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agriTutorial","title":"Additional sources of agricultural data","text":"https://myaseen208.github.io/agriTutorial/ Five datasets used illustrate analyses.","code":""},{"path":"/articles/agridat_data.html","id":"agricolae","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agricolae","title":"Additional sources of agricultural data","text":"assorted data functions analysis agricultural data.","code":""},{"path":"/articles/agridat_data.html","id":"agrobiodata","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"agroBioData","title":"Additional sources of agricultural data","text":"https://github.com/OnofriAndreaPG/agroBioData Datasets agriculture applied biology. Referenced blog: https://www.statforbiology.com/","code":""},{"path":"/articles/agridat_data.html","id":"aml---adaptive-mixed-lasso","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"aml - Adaptive Mixed LASSO","title":"Additional sources of agricultural data","text":"Data aml::wheat genetic phenotypic data wheat. Modest size.","code":""},{"path":"/articles/agridat_data.html","id":"bglr---bayesian-generalized-linear-regression-","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"BGLR - Bayesian Generalized Linear Regression.","title":"Additional sources of agricultural data","text":"matrix (pedigree) 499 genotypes 4 locations.","code":""},{"path":"/articles/agridat_data.html","id":"blr---bayesian-linear-regression-","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"BLR - Bayesian Linear Regression.","title":"Additional sources of agricultural data","text":"matrix (pedigree) 499 genotypes 4 locations.","code":""},{"path":"/articles/agridat_data.html","id":"bsagri","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"BSagri","title":"Additional sources of agricultural data","text":"Safety assessment agriculture trials","code":""},{"path":"/articles/agridat_data.html","id":"clustvarlv","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"ClustVarLV","title":"Additional sources of agricultural data","text":"Data apples_sh sensory attributes preference scores 12 apple varieties.","code":""},{"path":"/articles/agridat_data.html","id":"cropcc---climate-change-on-crops","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"cropcc - Climate change on crops","title":"Additional sources of agricultural data","text":"https://r-forge.r-project.org/projects/cropcc/","code":""},{"path":"/articles/agridat_data.html","id":"drc---dose-response-curves","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"drc - Dose response curves","title":"Additional sources of agricultural data","text":"nice herbicide dose response curves germination data mungbean, rice, wheat.","code":""},{"path":"/articles/agridat_data.html","id":"epiphy","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"epiphy","title":"Additional sources of agricultural data","text":"https://github.com/chgigot/epiphy Contains 10 historical datasets plant disease epidemics.","code":""},{"path":"/articles/agridat_data.html","id":"fw---finlay-wilkinson-regression","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"FW - Finlay-Wilkinson regression","title":"Additional sources of agricultural data","text":"https://github.com/lian0090/FW/ phenotype data marker data 599 wheat lines 4 environments.","code":""},{"path":"/articles/agridat_data.html","id":"ggenealogy","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"ggenealogy","title":"Additional sources of agricultural data","text":"https://doi.org/10.18637/jss.v089.i13 Data sbGeneal contains soybean pedigree 230 varieties.","code":""},{"path":"/articles/agridat_data.html","id":"grbase","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"gRbase","title":"Additional sources of agricultural data","text":"Data gRbase::carcass: thickness meat fat slaughter pigs","code":""},{"path":"/articles/agridat_data.html","id":"lmdiallel","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"lmDiallel","title":"Additional sources of agricultural data","text":"https://github.com/OnofriAndreaPG/lmDiallel/tree/master/data","code":""},{"path":"/articles/agridat_data.html","id":"lmtest","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"lmtest","title":"Additional sources of agricultural data","text":"Data lmtest::ChickEgg time series annual chicken egg production United States 1930-1983.","code":""},{"path":"/articles/agridat_data.html","id":"nada","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"NADA","title":"Additional sources of agricultural data","text":"Data Atra Recon contain measurements Atrazine water samples.","code":""},{"path":"/articles/agridat_data.html","id":"nlraa","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"nlraa","title":"Additional sources of agricultural data","text":"Miguez. Non-linear models agriculture. nlraa::sm = agridat::miguez.biomass Vignettes functions working (non)linear mixed models","code":""},{"path":"/articles/agridat_data.html","id":"nlme","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"nlme","title":"Additional sources of agricultural data","text":"nlme::Orange: Growth orange trees nlme::Soybean: Growth soybean plants. book “Nonlinear Models Repeated Measurement Data”.","code":""},{"path":"/articles/agridat_data.html","id":"ofpe---on-farm-precision-experiments","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"OFPE - On-Farm Precision Experiments","title":"Additional sources of agricultural data","text":"https://paulhegedus.github.io/OFPE-Website/ https://github.com/paulhegedus/OFPEDATA/","code":""},{"path":"/articles/agridat_data.html","id":"onfant-dataset","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"onfant.dataset","title":"Additional sources of agricultural data","text":"https://github.com/AnabelleLaurent/onfant.dataset","code":""},{"path":"/articles/agridat_data.html","id":"pbkrtest","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"pbkrtest","title":"Additional sources of agricultural data","text":"pbkrtest::beets Yield percent sugar split-plot experiment.","code":""},{"path":"/articles/agridat_data.html","id":"plantbreeding","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"plantbreeding","title":"Additional sources of agricultural data","text":"https://r-forge.r-project.org/projects/plantbreeding/","code":"Data: fulldial Data: linetester Data: peanut - same as agridat::kang.peanut"},{"path":"/articles/agridat_data.html","id":"sdaa---survey-data-and-analysis","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SDaA - Survey Data and Analysis","title":"Additional sources of agricultural data","text":"package county-level data United States Census Agriculture, along vignette illustrate survey sampling analyses.","code":""},{"path":"/articles/agridat_data.html","id":"semipar","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SemiPar","title":"Additional sources of agricultural data","text":"Data: SemiPar::onions agridat::ratkowski.onions","code":""},{"path":"/articles/agridat_data.html","id":"soildb","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"soilDB","title":"Additional sources of agricultural data","text":"https://ncss-tech.github.io/AQP/soilDB/soilDB-Intro.html Soil database interface.","code":""},{"path":"/articles/agridat_data.html","id":"sommer---solving-mixed-model-equations-in-r","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"sommer - Solving mixed model equations in R","title":"Additional sources of agricultural data","text":"Data: h2. Modest-sized GxE experiment potato Data: cornHybrid. Yield/PLTHT 100 hybrids 20 inbred * 20 inbred, 4 locs. Phenotype relationship matrix. Data: Data: RICE Data: FDdata taken agridat::bond.diallel Data:","code":"data(DT_wheat) #  CIMMYT wheat data DT_wheat # 599 varieties, yield in 4 envts GT_wheat # 599 varieties, 1279 markers coded -1,1 data(DT_technow) # From http://www.genetics.org/content/197/4/1343.supplemental DT <- DT_technow  # 1254 hybs, parents, GY=yield, GM=moisture Md <- Md_technow  # 123 dent parents, 35478 markers Mf <- Mf_technow  # 86 flint parents, 37478 markers Ad <- Ad_technow  # 123 x 123 A matrix  Af <- Af_technow  # 86 x 85 A matrix"},{"path":"/articles/agridat_data.html","id":"soynam---soybean-nested-association-mapping","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SoyNAM - Soybean nested association mapping","title":"Additional sources of agricultural data","text":"Dataset phenotype data 3 yr, 9 locations, 18 environments, 60 thousand observations height, maturity, lodging, moisture, protein, oil, fiber, seed size. 5000+ strains, 40 families. Data formatted analysis NAM package available following command: SoyNAM::ENV().","code":""},{"path":"/articles/agridat_data.html","id":"soyurt","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"SoyURT","title":"Additional sources of agricultural data","text":"https://github.com/mdkrause/SoyURT Large historical data yield trials Uniform Soybean Tests Northern States. Years 1989-2019, 63 locations, 4257 genotypes. package also contains soils weather data trial locations. Note: USDA published papers results : National Cotton Variety Tests, Uniform Soybean Tests Northern States, Uniform Soybean Tests Southern States : https://www.ars.usda.gov/southeast-area/stoneville-ms/crop-genetics-research/docs/","code":""},{"path":"/articles/agridat_data.html","id":"spdep","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"spdep","title":"Additional sources of agricultural data","text":"vignette ‘Problem Spatial Autocorrelation: forty years ’ examines agriculture Irish counties. See also data ade4::irishdata.","code":""},{"path":"/articles/agridat_data.html","id":"spurs","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"spuRs","title":"Additional sources of agricultural data","text":"Data: spuRs::trees data 107 trees cut cross sections volume calculated roughly 10-year increments. subset much-larger original data Guttenberg: https://archive.org/stream/wachstumundertra00gutt","code":""},{"path":"/articles/agridat_data.html","id":"statforbiology","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"StatForBiology","title":"Additional sources of agricultural data","text":"https://www.statforbiology.com/ Blog posts example analyses.","code":""},{"path":"/articles/agridat_data.html","id":"biometris---statgengxe","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"Biometris - statgenGxE","title":"Additional sources of agricultural data","text":"https://github.com/Biometris/statgenGxE https://biometris.github.io/statgenGxE/ AMMI, FW, GGE stability analyses.","code":""},{"path":"/articles/agridat_data.html","id":"biometris---statgengwas","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"Biometris - statgenGWAS","title":"Additional sources of agricultural data","text":"https://github.com/Biometris/statgenGWAS/ https://CRAN.R-project.org/package=statgenGWAS nice package full GxE data marker data 41722 loci 246 lines. 256 hybrids, 29 envts across 2 years, multi-trait (yield, silking, pltht, earht, etc). Includes worked example data : https://data.inra.fr/dataset.xhtml?persistentId=doi:10.15454/IASSTN publication: Millet 2016, Genome-Wide Analysis Yield Europe: Allelic Effects Vary Drought Heat Scenarios, https://academic.oup.com/plphys/article/172/2/749/6115953","code":""},{"path":"/articles/agridat_data.html","id":"biometris---statgensta","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"Biometris - statgenSTA","title":"Additional sources of agricultural data","text":"https://github.com/Biometris/statgenSTA/ https://CRAN.R-project.org/package=statgenSTA Analysis phenotypic data field experiments using SpATS, lme4, asreml.","code":""},{"path":"/articles/agridat_data.html","id":"st4gi---stat-for-genetic-improvement","dir":"Articles","previous_headings":"R packages on CRAN, Github, etc.","what":"st4gi - Stat for genetic improvement","title":"Additional sources of agricultural data","text":"https://github.com/reyzaguirre/st4gi","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"ars-oat-trials","dir":"Articles","previous_headings":"Web sites","what":"ARS oat trials","title":"Additional sources of agricultural data","text":"https://www.ars.usda.gov/Main/docs.htm?docid=8419&page=4","code":""},{"path":"/articles/agridat_data.html","id":"cimmyt-research-data","dir":"Articles","previous_headings":"Web sites","what":"CIMMYT Research Data","title":"Additional sources of agricultural data","text":"https://data.cimmyt.org/dataverse/cimmytdatadvn","code":""},{"path":[]},{"path":"/articles/agridat_data.html","id":"grain-genes","dir":"Articles","previous_headings":"Web sites","what":"Grain genes","title":"Additional sources of agricultural data","text":"https://wheat.pw.usda.gov/ggpages/HxT/ Harrington x TR306 Barley Mapping Population. genotype phenotype data comes Mapmaker, seems slightly non-standard format; 145 DH lines, 217 markers, 25 env, 1 rep. https://wheat.pw.usda.gov/ggpages/SxM/ . data agridat::steptoe.morex.","code":""},{"path":"/articles/agridat_data.html","id":"glten---a-network-of-long-term-trials-around-the-world","dir":"Articles","previous_headings":"Web sites","what":"GLTEN - A network of Long-Term trials around the world","title":"Additional sources of agricultural data","text":"https://glten.org/","code":""},{"path":"/articles/agridat_data.html","id":"ideals","dir":"Articles","previous_headings":"Web sites","what":"Ideals","title":"Additional sources of agricultural data","text":"https://www.ideals.illinois.edu/handle/2142/3528 Data File : Raw data ear analyzed year Illinois long-term selection experiment oil protein corn (1896-2004)","code":""},{"path":"/articles/agridat_data.html","id":"international-potato-center","dir":"Articles","previous_headings":"Web sites","what":"International Potato Center","title":"Additional sources of agricultural data","text":"https://data.cipotato.org/dataverse.xhtml","code":""},{"path":"/articles/agridat_data.html","id":"ilri-international-livestock-research-institute","dir":"Articles","previous_headings":"Web sites","what":"ILRI International Livestock Research Institute","title":"Additional sources of agricultural data","text":"Case study 4 nice diallel example sheep data. Available agridat::ilri.sheep","code":""},{"path":"/articles/agridat_data.html","id":"irri-biometrics-and-breeding-informatics","dir":"Articles","previous_headings":"Web sites","what":"IRRI Biometrics and Breeding Informatics","title":"Additional sources of agricultural data","text":"http://bbi.irri.org/products STAR, PBTools, CropStat. STAR user guide well-documented data (even using 2 agridat), PBTools user guide document data.","code":""},{"path":"/articles/agridat_data.html","id":"miappe-minimum-information-about-plant-phenotyping-experiments","dir":"Articles","previous_headings":"Web sites","what":"MIAPPE Minimum Information About Plant Phenotyping Experiments","title":"Additional sources of agricultural data","text":"https://www.miappe.org/ limited data.","code":""},{"path":"/articles/agridat_data.html","id":"rothamsted-electronic-archive","dir":"Articles","previous_headings":"Web sites","what":"Rothamsted Electronic Archive","title":"Additional sources of agricultural data","text":"http://www.era.rothamsted.ac.uk/index.php Data Broadbalk long-term experiments. Github draft data: https://github.com/Rothamsted-Ecoinformatics/YieldbookDatasetDrafts","code":""},{"path":"/articles/agridat_data.html","id":"rothamsted-documents-archive","dir":"Articles","previous_headings":"Web sites","what":"Rothamsted Documents Archive","title":"Additional sources of agricultural data","text":"http://www.era.rothamsted.ac.uk/eradoc/collections.php Annual reports Rothamsted 1908-1987. Many data, especially early years (WWII) data given ‘Classical Experiments’.","code":"Year, page 1908-1926  1926-1927 agridat::sawyer.multi.uniformity  1927-1928 agridat::sawyer.multi.uniformity 1929-1930 1931,143 agridat::yates.oats 1932 1933 1934,215-222 Sugar beet multi-environment trial with 3^3 fertilizer    treatments at each site Roots, SugarPercent, SugarWeight, PlantNumber, Tops, Purity. 1935 1936,241 Similar to the 1934 experiment, but only gives the main effects,    not the actual data. 1937-1939 1946-1955  1986"},{"path":"/articles/agridat_data.html","id":"yates-1937-the-design-and-analysis-of-factorial-experiments","dir":"Articles","previous_headings":"Web sites","what":"Yates (1937), The Design and analysis of factorial experiments","title":"Additional sources of agricultural data","text":"","code":"9 2x2x2, 4 rep 27 2x2x2x2x2 factorial 33 2x2x2 factorial in two 4x4 Latin Squares 42 3x3x3 factorial 59 3x2x2 factorial in 3 reps.  See also page 39. 74 Split-plot agridat::yates.oats"},{"path":"/articles/agridat_data.html","id":"statistical-analysis-of-agricultural-experiments-with-r","dir":"Articles","previous_headings":"Web sites","what":"Statistical Analysis of Agricultural Experiments with R","title":"Additional sources of agricultural data","text":"rstats4ag.org (http included firewall problems). Datasets mixed models, ancova, dose response curves, competition.","code":""},{"path":"/articles/agridat_data.html","id":"syngenta-crop-challenge","dir":"Articles","previous_headings":"Web sites","what":"Syngenta Crop Challenge","title":"Additional sources of agricultural data","text":"https://www.ideaconnection.com/syngenta-crop-challenge/ Annual Kaggle-style competition sponsored Syngenta.","code":""},{"path":"/articles/agridat_data.html","id":"terra-ref","dir":"Articles","previous_headings":"Web sites","what":"Terra-Ref","title":"Additional sources of agricultural data","text":"https://terraref.org/ Sensor observations, plant phenotypes, derived traits, genetic genomic data. Beta version Nov 2018.","code":""},{"path":"/articles/agridat_data.html","id":"usda-national-agricultural-statistics-service","dir":"Articles","previous_headings":"Web sites","what":"USDA National Agricultural Statistics Service","title":"Additional sources of agricultural data","text":"https://www.nass.usda.gov https://quickstats.nass.usda.gov/ Group: Field Crops Commodity: Corn Category: Area Harvested, Yield Data Item: Corn grain Acres Harvested, Yield Bu/Ac Domain: Total Geography: State See agridat::nass.corn, nass.wheat, etc.","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"setup","dir":"Articles","previous_headings":"","what":"Setup","title":"Graphical Gems in the agridat Package","text":"exhibit agricultural data uses following packages: agridat, desplot, gge, HH, lattice, latticeExtra, mapproj, maps, reshape2.","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"potato-blight-incidence-over-space-and-time","dir":"Articles","previous_headings":"","what":"Potato blight incidence over space and time","title":"Graphical Gems in the agridat Package","text":"@lee2009random analyzed large dataset evaluate resistance potato varieties blight. data contains evaluations changing set varieties every two years, evaluated 5 blocks, repeatedly throughout growing season track progress disease. panel shows field map given date, separate row panels year. include field spatial trends model data?  1983, 20 varieties evaluated 5 blocks (shown colored numbers) throughout growing season disease resistance. Resistance scores start 9 varieties (shown panels). growing season progresses, ‘.HARDY’ variety succumbs quickly blight, ‘IWA’ succumbs steadily, ‘064.1’ resists blight near end season. view show differences blocks?","code":"## Loading required package: desplot ## Loading required package: latticeExtra ## Loading required package: lattice"},{"path":"/articles/agridat_graphical_gems.html","id":"an-informative-prior","dir":"Articles","previous_headings":"","what":"An informative prior","title":"Graphical Gems in the agridat Package","text":"@harrison2012bayesian used Bayesian approach model daidzein levels soybean samples. 18 previous publications, extracted published minimum maximum daidzein levels, number samples tested. line dotplot shows large, dark dots one published minimum maximum. small dots imputed using lognormal distribution. observed/imputed data used fit common lognormal distribution can used informative prior. common prior shown density top dotplot. think better use non-informative prior, informative prior?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"data-densities-for-a-binomial-glm","dir":"Articles","previous_headings":"","what":"Data densities for a binomial GLM","title":"Graphical Gems in the agridat Package","text":"@mead2002statistical present data germination seeds four temperatures (T1-T4) four chemical concentrations. 4*4=16 treatments, 50 seeds tested four reps. graphic, point one rep. blue line fitted curve GLM Temperature factor log concentration covariate. gray lines show central 95 percent binomial density position. display help understand logit link changing shape binomial density?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"verification-of-experiment-layout","dir":"Articles","previous_headings":"","what":"Verification of experiment layout","title":"Graphical Gems in the agridat Package","text":"@gomez1984statistical provide data experiment 3 reps, 6 genotypes, 3 levels nitrogen 2 planting dates. experiment layout putatively ‘’split strip-plot’’. verify design, desplot package used plotting design field experiments. design different ‘’split-split-plot’’ design?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"visualizing-main-effects-two-way-interactions","dir":"Articles","previous_headings":"","what":"Visualizing main effects, two-way interactions","title":"Graphical Gems in the agridat Package","text":"@heiberger2004statistical provide interesting way use lattice graphics visualize main effects (using boxplots) interactions (using interaction plots) data. Rice yield plotted versus replication, nitrogen, management type, genotype variety. Box plots show minor differences reps, increaing yield due nitrogen, high yield intensive management, large differences varieties. think interaction plots show interaction (lack parallelism)?","code":"## Loading required package: HH ## Loading required package: grid ## Loading required package: multcomp ## Loading required package: mvtnorm ## Loading required package: survival ## Loading required package: TH.data ## Loading required package: MASS ##  ## Attaching package: 'TH.data' ## The following object is masked from 'package:MASS': ##  ##     geyser ## Loading required package: gridExtra ##  ## Attaching package: 'HH' ## The following object is masked from 'package:base': ##  ##     is.R"},{"path":"/articles/agridat_graphical_gems.html","id":"d-yield-response-to-fertilizers","dir":"Articles","previous_headings":"","what":"3D yield response to fertilizers","title":"Graphical Gems in the agridat Package","text":"Note: image created manual manipulation rgl device. manual manipulation makes non-reproducible Rmd file. See example sinclair.clover data code.  @sinclair1994sulphur examined clover yields function sulfur phosphorous fertilizer factorial-treatment experiment. @dodds1996bivariate modeled yield response using Mitzerlisch-like equation allows interacting curvature two dimensions xx yy: yield=α*(1+β*(σ+τ*xx+1)y)*(1+δ*(θ+ρ*yy+1)x) yield = \\alpha * \\left( 1 + \\beta *\\left(\\frac{\\sigma + \\tau*x}{x+1}\\right)^y\\right) * \\left( 1+\\delta*\\left(\\frac{\\theta + \\rho *y}{y+1}\\right)^x \\right) blue dots observed data, tan surface fitted surface drawn rgl package). decide optimal fertilizer levels?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"mosaic-plot-of-potato-damage-from-harvesting","dir":"Articles","previous_headings":"","what":"Mosaic plot of potato damage from harvesting","title":"Graphical Gems in the agridat Package","text":"@keen1997analysis looked damage potatoes caused lifting rods harvest. experiment, eight types lifting rods compared. Two energy levels, six genotypes three weight classes used. combinations treatments, 20 potato tubers rated undamaged (D1, yellow) severely damaged (D4, red). Counts per treatment shown mosaic plot. style lifting rods cause least/damage potatoes?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"yield-vs-covariate-for-latticebarley","dir":"Articles","previous_headings":"","what":"Yield vs covariate for lattice::barley","title":"Graphical Gems in the agridat Package","text":"@wright2013revisiting investigated lattice::barley data. original two years data extended 10 years (original source documents), supplemented weather covariates 6 locations 10 years. panel shows scatterplot regression average location yield verses weather covariate. Horizontal strips locations, vertical strips covariates: cdd = Cooling Degree Days, hdd = Heating Degree Days, precip = Precipitation). Higher values heating imply cooler weather. plotting symbol last digit year (1927-1936) location. barley yield better cooler warmer weather?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"gge-biplot","dir":"Articles","previous_headings":"","what":"GGE biplot","title":"Graphical Gems in the agridat Package","text":"@laffont2013genotype developed variation GGE (genotype plus genotype--environment) biplot include auxiliary information block/group environments. location classified one two mega-environments (colored). mosaic plots partition variation simultaneously principal component axis source (genotype, genotype--block, residual). genotypes best mega-environment?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"nebraska-farming-income-choropleth","dir":"Articles","previous_headings":"","what":"Nebraska farming income choropleth","title":"Graphical Gems in the agridat Package","text":"Red-Blue palette RColorBrewer package divergent palette light colors near middle scale. can cause problems missing values, appear white (technically, background). order increase visibility missing values, agridat package uses Red-Gray-Blue palette, gray color dark enough clearly distinguish missing values. outlier county (Butler) northeast Nebraska limit interpration spatial patterns data?  counties different sizes, second graphic uses income rate per square mile. outlier, might smart use percentile break points, hides outlier. Instead, break points calculated using method called Fisher-Jenks. break points show outlier spatial patterns. now easy see northwest (Sandhills) Nebraska low farming income, especially crops. Counties missing data white, easily distinguished gray. farm incomes highest? ?","code":"## Loading required package: maps ## Loading required package: mapproj"},{"path":"/articles/agridat_graphical_gems.html","id":"las-rosas-yield-monitor","dir":"Articles","previous_headings":"","what":"Las Rosas yield monitor","title":"Graphical Gems in the agridat Package","text":"@anselin2004spatial @lambert2004comparison looked yield monitor data collected corn field Argentina 1999 2001, see yield affected field topography nitrogen fertilizer. figures show heatmaps yield year, also experiment design (colors reps, shades color nitrogen level, plotting character topography). year showed greater spatial variation yield?","code":""},{"path":"/articles/agridat_graphical_gems.html","id":"time-series-of-corn-yields-by-state","dir":"Articles","previous_headings":"","what":"Time series of corn yields by state","title":"Graphical Gems in the agridat Package","text":"National Agricultural Statistics Service tracks total number acres planted corn (crops) state U.S. large changes past century corn acreage selected states. states corn belt 1925? states corn belt 2000?","code":""},{"path":[]},{"path":"/articles/agridat_intro.html","id":"comments-on-the-package-purpose","dir":"Articles","previous_headings":"","what":"Comments on the package purpose","title":"Introduction to agridat","text":"project first begun early 2000s, electronic versions agricultural datasets hard find. Since , revolution availability datasets related agriculture. See vignette describes data sources. Box (1957) said, “hoped seen end obscene tribal habit practiced statisticians continually exhuming massaging dead data sets purpose life long since forgotten possibility anything useful result treatment.” Massaging dead data sets lead genetics released commercial use. value package : 1. Validating published analyses. 2. Providing data testing new analysis methods. 3. Illustrating (validating) use R packages. White van Evert (2008) present guidelines publication data. examples use asreml package since R tool fitting mixed models complex variance structures large datasets, best option modelling AR1xAR1 residual variance structures. Commercial use asreml requires license VSN. (Use search engine find latest version).","code":""},{"path":"/articles/agridat_intro.html","id":"comments-on-the-package-structure","dir":"Articles","previous_headings":"","what":"Comments on the package structure","title":"Introduction to agridat","text":"Many datasets appear electronic form first time. tremendous amount effort given curating process identifying datasets, extracting data source materials, checking data values, documenting data. effect, make data somewhat ‘computable’ (Wolfram 2017). original sources data use different words refer genotypes including accession, breed, cultivar, genotype, hybrid, line, progeny, stock, type, variety. consistency, datasets mostly use gen (genotype). Also consistency, row col usually used field coordinates. dataframes, block, rep, similar terms almost always coded like B1, B2, B3 instead 1, 2, 3. causes R treat data factor instead numeric covariate (good thing). Almost data presented ‘tidy’ dataframes observations rows variables columns. Although using data() necessary access data files, example sections include use data() devtools::run_examples() needs .","code":""},{"path":"/articles/agridat_intro.html","id":"references","dir":"Articles","previous_headings":"","what":"References","title":"Introduction to agridat","text":"G. E. P. Box (1957). Integration Techniques Process Development, Transactions American Society Quality Control. J. White Frits van Evert. (2008). Publishing Agronomic Data. Agronomy Journal, 100, 1396-1400. https://doi.org/10.2134/agronj2008.0080F Stephen Wolfram (2017). Launching Wolfram Data Repository: Data Publishing Really Works. https://writings.stephenwolfram.com/2017/04/launching--wolfram-data-repository-data-publishing--really-works/","code":""},{"path":[]},{"path":"/articles/agridat_mixed_model_example.html","id":"brms","dir":"Articles","previous_headings":"GLM (not mixed–no random plate)","what":"brms","title":"Example generalized linear mixed model analysis with different packages","text":"takes minute compile Stan program… Note, Emacs brms ends R process reason!","code":"if(require(brms)){   m1.brms <- brms::brm( germ|trials(n)~ gen*extract,      data = dat,      family = binomial,      chains=3, iter=3000, warmup=1000)   summary(m1.brms)   # round(  summary(m1.brms)$fixed[,1:4] , 2)   #                        Estimate Est.Error l-95% CI u-95% CI   # Intercept                 -0.42      0.18    -0.77    -0.06   # genO75                    -0.14      0.22    -0.56     0.29   # extractcucumber            0.55      0.25     0.07     1.05   # genO75:extractcucumber     0.77      0.30     0.18     1.36 }"},{"path":"/articles/agridat_mixed_model_example.html","id":"glm","dir":"Articles","previous_headings":"GLM (not mixed–no random plate)","what":"glm","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"# ----- GLM. # family=binomial() fixes dispersion at 1 # family=quasibinomial() estimates dispersion, had larger std errors m1.glm <- glm(cbind(germ,n-germ) ~ gen*extract,               data=dat,               #family=\"binomial\",               family=quasibinomial()               ) summary(m1.glm)  ## round(summary(m1.glm)$coef,2) ##                        Estimate Std. Error t value Pr(>|t|) ## (Intercept)               -0.41       0.25   -1.64     0.12 ## genO75                    -0.15       0.30   -0.48     0.64 ## extractcucumber            0.54       0.34    1.58     0.13 ## genO75:extractcucumber     0.78       0.42    1.86     0.08"},{"path":"/articles/agridat_mixed_model_example.html","id":"rstan","dir":"Articles","previous_headings":"GLM (not mixed–no random plate)","what":"rstan","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"# ----- Stan using pre-built models from rstanarm   libs(tidyverse, rstan, rstanarm,bayesplot)   set.seed(42)   m1.stan <- stan_glm( cbind(germ,n-germ) ~ gen*extract,                       data=dat,                       family = binomial(link=\"logit\")  )   summary(m1.stan)   ## round(posterior_interval(m1.stan, prob=.90),3)   #                            5%    95%   # (Intercept)            -0.728 -0.115   # genO75                 -0.506  0.243   # extractcucumber         0.133  0.947   # genO75:extractcucumber  0.255  1.267    libs(bayesplot)   mcmc_areas(m1.stan, prob = 0.9) +     ggtitle(\"Posterior distributions\",             \"with medians and 95 pct intervals\")"},{"path":[]},{"path":"/articles/agridat_mixed_model_example.html","id":"asreml","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"asreml","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"if(require(asreml)){   m1.asreml <- asreml(germ ~ gen*extract,                       data=dat,                       random= ~ plate,                       family=asr_binomial(dispersion=1, total=n))   summary(m1.asreml)   ##    ##                          effect   ## (Intercept)               -0.47   ## gen_O73                    0.00   ## gen_O75                   -0.08   ## extract_bean               0.00   ## extract_cucumber           0.51   ## gen_O73:extract_bean       0.00   ## gen_O73:extract_cucumber   0.00   ## gen_O75:extract_bean       0.00   ## gen_O75:extract_cucumber   0.83    }"},{"path":"/articles/agridat_mixed_model_example.html","id":"massglmmpql","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"MASS::glmmPQL","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"# --- GLMM.  Assumes Gaussian random effects libs(MASS) m1.glmm <- glmmPQL(cbind(germ, n-germ) ~ gen*extract,                    random= ~1|plate,                    family=binomial(), data=dat) summary(m1.glmm) ## round(summary(m1.glmm)$tTable,2) ##                        Value Std.Error DF t-value p-value ## (Intercept)            -0.44      0.25 17   -1.80    0.09 ## genO75                 -0.10      0.31 17   -0.34    0.74 ## extractcucumber         0.52      0.34 17    1.56    0.14 ## genO75:extractcucumber  0.80      0.42 17    1.88    0.08"},{"path":"/articles/agridat_mixed_model_example.html","id":"glmmtmb","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"glmmTMB","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"libs(glmmTMB) m1.glmmtmb <- glmmTMB(cbind(germ, n-germ) ~ gen*extract + (1|plate),                       data=dat,                       family=binomial) round(summary(m1.glmmtmb)$coefficients$cond , 2) ##                        Estimate Std. Error z value Pr(>|z|) ## (Intercept)               -0.45       0.22   -2.03     0.04 ## genO75                    -0.10       0.28   -0.35     0.73 ## extractcucumber            0.53       0.30    1.74     0.08 ## genO75:extractcucumber     0.81       0.38    2.11     0.04"},{"path":"/articles/agridat_mixed_model_example.html","id":"hglm","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"hglm","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"# ----- HGML package. Beta-binomial with beta-distributed random effects if(require(hglm)){   m1.hglm <- hglm(fixed= germ/n ~ I(gen==\"O75\")*extract, weights=n, data=dat,                   random=~1|plate, family=binomial(), rand.family=Beta(),                   fix.disp=1)   summary(m1.hglm)   # round(summary(m1.hglm)$FixCoefMat,2)   ##                                     Estimate Std. Error t-value Pr(>|t|)   ## (Intercept)                            -0.47       0.24   -1.92     0.08   ## I(gen == \"O75\")TRUE                    -0.08       0.31   -0.25     0.81   ## extractcucumber                         0.51       0.33    1.53     0.16   ## I(gen == \"O75\")TRUE:extractcucumber     0.83       0.43    1.92     0.08 }"},{"path":"/articles/agridat_mixed_model_example.html","id":"inla","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"INLA","title":"Example generalized linear mixed model analysis with different packages","text":"See: https://haakonbakka.bitbucket.io/btopic102.html","code":"if(require(INLA)){   #gen,extract are fixed. plate is a random effect   #Priors for hyper parameters. See: inla.doc(\"pc.prec\")   hyper1 = list(theta = list(prior=\"pc.prec\", param=c(1,0.01)))   m1.inla = inla(germ ~ gen*extract + f(plate, model=\"iid\", hyper=hyper1),                  data=crowder.seeds,                   family=\"binomial\", Ntrials=n,                   control.family=list(control.link=list(model=\"logit\")))   round( summary(m1.inla)$fixed, 2)   ##                         mean   sd 0.025quant 0.5quant 0.975quant  mode kld   ## (Intercept)            -0.47 0.24      -0.96    -0.46       0.00 -0.46   0   ## genO75                 -0.08 0.31      -0.68    -0.09       0.54 -0.09   0   ## extractcucumber         0.53 0.33      -0.13     0.53       1.18  0.53   0   ## genO75:extractcucumber  0.82 0.43      -0.01     0.82       1.69  0.82   0 }"},{"path":"/articles/agridat_mixed_model_example.html","id":"rjags","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"rjags","title":"Example generalized linear mixed model analysis with different packages","text":"Requires JAGS installed.","code":"# JAGS/BUGS.  See https://mathstat.helsinki.fi/openbugs/Examples/Seeds.html # Germination rate depends on p, which is a logit of a linear predictor # based on genotype and extract, plus random deviation to intercept  # To match the output on the BUGS web page, use: dat$gen==\"O73\". # We use dat$gen==\"O75\" to compare with the parameterization above.  jdat =list(germ = dat$germ, n = dat$n, root = as.numeric(dat$extract==\"cucumber\"), gen = as.numeric(dat$gen==\"O75\"), nobs = nrow(dat))  jinit = list(int = 0, genO75 = 0, extcuke = 0, g75ecuke = 0, tau = 10)  # Use logical names (unlike BUGS documentation) mod.bug = \"model {   for(i in 1:nobs) {     germ[i] ~ dbin(p[i], n[i])     b[i] ~ dnorm(0.0, tau)     logit(p[i]) <- int + genO75 * gen[i] + extcuke * root[i] +                    g75ecuke * gen[i] * root[i] + b[i]   }   int ~ dnorm(0.0, 1.0E-6)   genO75 ~ dnorm(0.0, 1.0E-6)   extcuke ~ dnorm(0.0, 1.0E-6)   g75ecuke ~ dnorm(0.0, 1.0E-6)   tau ~ dgamma(0.001, 0.001)   sigma <- 1 / sqrt(tau) }\"  libs(rjags) oo <- textConnection(mod.bug) j1 <- jags.model(oo, data=jdat, inits=jinit, n.chains=1) close(oo)  c1 <- coda.samples(j1, c(\"int\",\"genO75\",\"g75ecuke\",\"extcuke\",\"sigma\"),                    n.iter=20000) summary(c1) # Medians are very similar to estimates from hglm # libs(lucid) # print(vc(c1),3) ##             Mean    SD    2.5%  Median   97.5% ## extcuke   0.543  0.331 -0.118   0.542   1.2    ## g75ecuke  0.807  0.436 -0.0586  0.802   1.7    ## genO75   -0.0715 0.309 -0.665  -0.0806  0.581  ## int      -0.479  0.241 -0.984  -0.473  -0.0299 ## sigma     0.289  0.142  0.0505  0.279   0.596   # Plot observed data with HPD intervals for germination probability c2 <- coda.samples(j1, c(\"p\"), n.iter=20000) hpd <- HPDinterval(c2)[[1]] med <- summary(c2, quantiles=.5)$quantiles fit <- data.frame(med, hpd)  libs(latticeExtra) obs <- dotplot(1:21 ~ germ/n, dat,                main=\"crowder.seeds\", ylab=\"plate\",                col=as.numeric(dat$gen), pch=substring(dat$extract,1)) obs + segplot(1:21 ~ lower + upper, data=fit, centers=med)"},{"path":"/articles/agridat_mixed_model_example.html","id":"r2jags","dir":"Articles","previous_headings":"Generalized Linear Mixed Model","what":"R2jags","title":"Example generalized linear mixed model analysis with different packages","text":"","code":"libs(\"agridat\") libs(\"R2jags\") dat <- crowder.seeds  # To match the output on the BUGS web page, use: dat$gen==\"O73\". # We use dat$gen==\"O75\" to compare with the parameterization above. jdat =list(germ = dat$germ, n = dat$n,            root = as.numeric(dat$extract==\"cucumber\"),            gen = as.numeric(dat$gen==\"O75\"),            nobs = nrow(dat))  jinit = list(list(int = 0, genO75 = 0, extcuke = 0, g75ecuke = 0, tau = 10))  mod.bug = function() {   for(i in 1:nobs) {     germ[i] ~ dbin(p[i], n[i])     b[i] ~ dnorm(0.0, tau)     logit(p[i]) <- int + genO75 * gen[i] + extcuke * root[i] +       g75ecuke * gen[i] * root[i] + b[i]   }   int ~ dnorm(0.0, 1.0E-6)   genO75 ~ dnorm(0.0, 1.0E-6)   extcuke ~ dnorm(0.0, 1.0E-6)   g75ecuke ~ dnorm(0.0, 1.0E-6)   tau ~ dgamma(0.001, 0.001)   sigma <- 1 / sqrt(tau) }  parms <- c(\"int\",\"genO75\",\"g75ecuke\",\"extcuke\",\"sigma\")  j1 <- jags(data=jdat, inits=jinit, parms, model.file=mod.bug,            n.iter=20000, n.chains=1) print(j1) ##          mu.vect sd.vect   2.5%    25%     50%     75%   97.5% ## extcuke    0.519   0.325 -0.140  0.325   0.531   0.728   1.158 ## g75ecuke   0.834   0.429 -0.019  0.552   0.821   1.101   1.710 ## genO75    -0.096   0.305 -0.670 -0.295  -0.115   0.089   0.552 ## int       -0.461   0.236 -0.965 -0.603  -0.455  -0.312   0.016 ## sigma      0.255   0.148  0.033  0.140   0.240   0.352   0.572 ## deviance 103.319   7.489 90.019 98.010 102.770 108.689 117.288  traceplot(as.mcmc(j1)) densityplot(as.mcmc(j1)) HPDinterval(as.mcmc(j1))  }"},{"path":[]},{"path":"/articles/agridat_uniformity_data.html","id":"archive-org---2023-04-07","dir":"Articles","previous_headings":"Searches","what":"archive.org - 2023.04.07","title":"Notes on uniformity data","text":"“uniformity trial” “optimum size plots” “Optimum Size Shape Plots”","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"google","dir":"Articles","previous_headings":"Searches","what":"Google","title":"Notes on uniformity data","text":"“uniformity trial data” “optimum size plots” “Optimum Size Shape Plots” “plot shape size” “field plot technique”","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"hathitrust","dir":"Articles","previous_headings":"Searches","what":"HathiTrust","title":"Notes on uniformity data","text":"“blank experiment” “plot technic” “plot technique” “uniformity trial”","code":""},{"path":[]},{"path":"/articles/agridat_uniformity_data.html","id":"u--nebr","dir":"Articles","previous_headings":"ToDo","what":"U. Nebr","title":"Notes on uniformity data","text":"Love, “Experimental methods agricultural research”. storage.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"iowa-state","dir":"Articles","previous_headings":"ToDo","what":"Iowa State","title":"Notes on uniformity data","text":"Parks Library Indian J Ag Sciences, 1931-1968, S1 In2 Storage. Tropical Agriculture. Empire Journal Experimental Agriculture","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"paper-not-found","dir":"Articles","previous_headings":"","what":"Paper not found","title":"Notes on uniformity data","text":"Abraham, T.P. & Vachhani, M.V. 1964. Investigations field experimental techniques rice crop. Indian J. Agric. Sci. 34, 152-165. Agarwal, K.N. (1973). Uniformity trial Apple. Indian Journal horticulture. 30:525-528. https://www.indianjournals.com/ijor.aspx?target=ijor:ijh&volume=30&issue=3and4&article=013 Paywall. available. Agarwal, K.N. & Deshpande, M.R. 1967. Size shape plots blocks field experiments dibbled paddy. Indian J. Agric. Sci., 37, 445-455. Agarwal, K.N., Bavappa, K.V.. Khosla, R.K. (1968). study size shape plots blocks optimum number experimental periods arecanut. Indian Journal Agricultural Sciences, 38, 444-460. found. Journal: http://epubs.icar.org./ejournal/index.php/IJAgS Agnihotri, V. Asrawal, M. C. 1996. Size shape plots blocks field experiments Eucalyptus Shivalik Hills. Indian Journal Forestry, 19, 74-78. found. Agnihotri, Y.; AGARWAL, M. C.. Uniformity Trials Determination Optimum Size Shape Plots/Blocks Experimentation Acacia catechu. Indian Forester, [S.l.], p. 711-716, aug. 1995. https://doi:10.36808//1995/v121i8/7202. found. Ali, ..; Ammar, S.E.M.M. Optimum plot size shape trials maize. Annals Agricultural Science, Moshtohor 36(3): 1361-1372. https://eurekamag.com/research/012/808/012808132.php found. Bhatnagar, S.; Srivastava, O.P. Lather, B. P. S. Optimum size shape plot mustard. Annals Agricultural Research. found. Bischoff, K.P.; Gravois, K..; Schexnayder, H.P.J.; Hawkins, G.L. (2001). effect harvest method plot size estimation sugarcane yield. Journal American Society Sugar Cane Technologists 21: 51-60. Bonazzi, . (1933). Errors field experimentation ratoon cane. Asoc. de Tec. Azucareros Cuba, Proc 7: 32-40. Looked hard, find. Original probably Spanish. Full publisher: Asociación de Técnicos Azucareros de Cuba. Calzada Benza, J. 1957. El error experimental y la precision en los experimentos. Lima Peru , Estac. Expt. Agr. de La Molina , Bol. 67 , 33 pp . found. Chapas, L.C. 1961. Plot size reduction variability oil palm experiments. Emp Jour. Exp. Agric., 29, 212-224. Chaudhary, G.K.; Prajapati, B.H.; Patel, J.K.; Prajapti, R..; Loria, J.M. (2011) Optimum size shape plot field experiments wheat North Gujarat Condition. J.Ind.Soci.Agril.S Chessmore, R. . Thesis :Entitled Evaluation Field Plot Techniques Testing Forage Grasses. Univ. Nebr. 1952. https://digitalcommons.unl.edu/dissertations/AAIDP13618/ Paywall. CRI (1985). Report Coconut Research Institute 1985. (Ed. R Mahindapala), Lunuwila, Sri Lanka. Currence, T.M.; Krantz, F.. (1936). relation plot size shape potato yield variations. Amer. Potato J 13, 310-13. https://doi.org/10.1007/bf02881080 Paywall: https://eurekamag.com/research/013/580/013580084.php Dutta, S. K., HEATH, E. D. (1960) Size, shape, number plots field experiments tea. found. Fairchild, J. . (1928). Comparative Value Systems Replications Size Shape Plots Oats Nursery Trials. Thesis, Okla. Agr. Mech. Coll. Stillwater, Okla. 1928. found. Faqir Mohammad, Tariq Mahmood Bajwa; Sohail Ahmad. (2001). Size Shape Plots Wheat Yield Trials Field Experiments. International Journal Agriculture & Biology, 4, 397-402. Fisher, Alan Charles (1973). Technique Designing Field Experiments Using Uniformity Trial Data. North Carolina State University Raleigh. https://catalog.lib.ncsu.edu/catalog/NCSU508428 electronic version. French, M. H. (1956). Minimum size experimental plots assessment pasture yield. East African Agr. Forestry Res. Organ. Rpt. 1956. French, M. H. Errores asociados con el uso de pequeñas parcelas de prueba en las evaluaciones de rendimiento de pastos. Agron. Trop. 10, 71-76. Galal, H.E.; E.G.ttouh Abou. (1971). Estimation optimum plot size shape Egyptian cotton yield trials. Alexandria Journal Agricultural Research 19(2): 233-238 Gopini, D.D.; Kabaria, M.M. Vaishnani, N.L. (1970). Size shape plots field experiments groundnut. Indian Journal agricultural science, 40, 1004-1010. found. Gosh, G.L.M. & Sanyal, .T. 1945. Techniques field experiments jute. Agri. Res. Memoire 4, Indian Central Jute Comm. Gupta, J.P. Raghavarao, D. (1969). uniformity trial onions. Journal Indian Horticulture, 7, 184-187. Gupta, J.P. Raghavarao, D. (1971). Optimum Size Plots Experiments Weight Onion Bulbs. Indian Journal Horticulture, 28, 234-236. Gupta, S. C.; Kauchik, L. S.; Yadava T. P. (1991). study size shape experimental plots groundnut. Indian Journal Agricultural Research, 25, 161-166. https://krishikosh.egranth.ac./handle/1/2040054 Restricted access. Hamdi, .; Shokr, E. M. H.; Sedhom, S. .; Hassanein, S. . . (2003). Estimation optimum plot size shape lentil yield trials. Egyptian Journal Agricultural Research, 81, 1723-1734. Handa, D.P., Sreenath, P.R., Sastry, J.., Rajpal, S.K. Shukla, N.P. (1982). Size shape plots blocks experiments oats grown fodder. Indian Journal agricultural sciences, 52, 466-471. found. Hoshyar Chand Sharma (1991). observations estimation plot size shape, Bartlett’s Rate Index yield loss adjustments. Journal Indian potato Association, 18, 9-18. Jayaram, K.; Venkataramu, M.N.; Sunderrajan, N.; Seetharam, . (1981) Optimum size shape plots blocks field experiments sunflower (Helianthus annuus Linn.) Mysore Journal Agricultural Sciences 15(4): 512-518 https://eurekamag.com/research/001/422/001422535.php Jolly, . L. (1942). Uniformity trials estate cacao fields Grenada, B.W.. Tropical Agriculture, 19, 167-174. https://journals.sta.uwi.edu/ta/index.asp?action=viewIssue&issueId=532 access. Kaushik, L.S.; Kapoor, K.; Hasija, R.C.; Tyagi, C.S. (1989). uniformity trial moong (Vigna radiata (L) Wilczek) Indian Journal Agricultural Research 23(3): 138-142 https://krishikosh.egranth.ac./handle/1/2040100 Restricted access. Khan, Mujahid. 2015. Uniformity trial raya (Brassica juncea). M.Sc. Dissertation. https://krishikosh.egranth.ac./handle/1/80362 Seems like paper unlocked , download fails. Khurana, ., Rai, L. Gupta, S.N. (1992). uniformity trial soybean (Glycine max. L.). Haryana agricultural University Journal research, 22, 225-228. Krantz, F. . (1922). Preliminary Study Field Plot Technique Potato Yield Test. Rept, Potato Assoc. . 42-44. found. Krantz, F. . (1923) studies field plot technique potato yield tests. Proc. Tenth Ann. Meeting Pot. Assn Amer, 174-179. found. Kristiensen, K. Ersboll, .K. 1995. use Geostatistical methods variety trials, varieties unreplicated. Biuletyn Oceny Odmain (Cultivar Testing Bulletin), 26-27, 113-122. found. Kumar, Manoj Hasija (2002). study size shape plots wheat. Annals Agriculture Bio-research 7 (1), 89-93 Lajpat Rai, Gupta, S.N. Rai, L. (1994). Optimum size shape plots field experiments soyabean (Glycine max. L.). Annals biology Ludhiana, 10, 261-263. Lakhera, M.L.; Singh, V.P.; Sundar, R. M. Patel, N.M. (1995). Optimum size shape plot field experiments gram. Gujarat Agricultural University Research Journal, 21, 142-148. https://eurekamag.com/research/002/912/002912452.php Paywall. Lakshmi, K. R. Gadewar, .U. (1989). Optimum plot size field trials yams. J. Root Crops, 15, 25-27. https://eurekamag.com/research/001/901/001901900.php Paywall. Lopes, S. J. et al. (2005). Experimental plot size grain sorghum different plant densities. June 2005; Pesquisa Agropecuária Brasileira 40(6):525-530. Lu, ChunTang et al (1995). Estimation optimum plot size replicates number using data rice uniformity trials. J. Agricultural Research China, 44, 229-241. Love, Harry H. (1943). Experimental Methods Agricultural Research. Agr. Exp. Sta. University Puerto Rico. Rio Piedras Puerto Rico. data (according Mendez). Might data love.cotton.uniformity TODO Physical copy Univ Nebr. https://unl.primo.exlibrisgroup.com/discovery/fulldisplay?docid=alma991020452609706387&context=L&vid=01UON_LINC:UNL&lang=en&search_scope=MyInst_and_CI&adaptor=Local%20Search%20Engine&tab=Everything&query=,contains,Experimental%20Methods%20in%20Agricultural%20Research&mode=basic Mahalanobis, P C; Chakravorti, S C; Banerjee, E R. 1934. Influence shape size plots accuracy field experiments rice, Chinsurah, Bengal Procedings Indian Science Congress (Bombay) Sec Agricultural Statistics 21, 71. http://library.isical.ac.:8080/xmlui/handle/10263/1793 found; pdf contains abstract. Mangat, N. S. (1984). Optimum size shape plot block cotton field experiments. Journal Research-Punjab Agricultural University (India). McHatton, T.H. 1947. comparison plot size peach experiment Proceedings American Society Hort Science 49: 18-20 https://eurekamag.com/research/013/864/013864510.php access. found. Medina Urrutia, V. M. S. Becerra Rodriguez,J. L. Macias Gonzalez (1980). Optimum size shape experimental plots research studies Mexican lemon (Citrus aurantifolia). Agricultura tec. Mex. 1980 Vol.6 .2 pp.93-105 ref.11 Menon, T.C.M. Tyagi, B.N. (1971). Optimum size shape plots experiments mandarin orange. Indian Journal agricultural science, 41, 857-861. https://eurekamag.com/research/000/153/000153659.php available. Murray, D.B. 1950. uniformity trial swamp rice. Tropical Agriculture https://journals.sta.uwi.edu/ojs/index.php/ta/article/view/4964 access. Pandya, H.R.; Upadhyay, S.M>; Parmar, B.. (2006). Analysis uniformity trial cotton. J. Ind. Soc. Agric. Statist, 60, 175-236. Peiris, W. V. D. Salgado, M. L. M. (1937). Experimental error field experiments coconut. Tropical Agriculture, Trinidad, 89:75-85 Pimentel Gomes, F. (1987). Novos Aspectos Tamanho Otimo das Parcelas em Experimentos Com Plantas Arbdreas (New Contribution Problem Plot Size Experiments Trees). Pesq. agropec. bras., Brasilia (press). Rambabu; Aarwal, M.C.; Somaraj, P. Chinnamani, S. (1980). Size shape plots blocks field trials natural grasslands Nilgiris hills. Indian Journal agricultural science, 50, 598-602. https://eurekamag.com/research/006/424/006424390.php found Sarma, Y.R.B.; Rao, .V.; Srinivasan, T.E (1977). Note size shape plots blocks rice field experiments. Indian Journal Agricultural Sciences 47(12): 639-641 https://eurekamag.com/research/000/707/000707085.php Paywall. Schuster, W; Bretschneider-Hermann, N; Zschoche, K.-H. (1984). Untersuchungen zur Feldversuchstechnik von Winterraps. Versuche zur Teilstückgrösse, Teilstückform und zur Zahl der Wiederholungen [English: Investigations experimental designs winterrape experiments plot size, plot-shape numbers replications]. Zeitschrift für Acker- und Pflanzenbau. [Eng: Journal agronomy crop science]. 1984, Vol 153, Num 6, pp 446-459. Seif, R. D., (1957). Optimum Field Plot Size Shape Lima Bean Yields. Unpublished Ph.D. thesis. Ithaca, New York. Cornell University. https://newcatalog.library.cornell.edu/catalog/1151920 found. Physical copy Cornell University. TODO Sen, .R. (1963). techniques experimentation cloval tea based uniformity trial. Emp. J. Exp. Agri., 31, 296-310. Sethi, .S. (1985). modified approach determine optimum size shape plots field experiments maize grown terraced land. Indian Journal Agricultural Sciences, 36, 95-99. Sethi, .S.; Kapur, M.L. (1995). Optimum size shape experimental plots sugarcane grown Punjab conditions Journal Research, Punjab Agricultural University 32(4): 418-425 https://eurekamag.com/research/002/912/002912450.php Paywall Shamasundaran, K.S., Singh, K.P. Mandhar, S.C. (2002). Standardization optimum size shape plots gerbera naturally ventilated greenhouse condition. Indian Journal Horticulture, 59, 431-434. http://www.indianjournals.com/ijor.aspx?target=ijor:ijh&volume=59&issue=4&article=019 Paywall. Shu, S.C.; Park, S.H.; Yu, .S.; Joo, Y.J.; Hong, Y.K. (1970). Studies optimum plot size, plot shape number replications field experiments wheat. Research Reports Office Rural Development, S. Korea, Crops, 13: 95-99 https://eurekamag.com/research/014/696/014696398.php Singh, R.P. (1989). Optimum plot size yield trials chillies Indian Journal Horticulture 46(3): 404-406 https://eurekamag.com/research/001/901/001901901.php Sreenath, P.R. (1973). Size shape plots blocks field trials sorghum. Indian Journal Agricultural Sciences, 43, 110-112. found. Srinivasan, C.S.; George, M.V.; Subbalakshmi, V.; Amarnath, C.H. (1994). Optimum plot size field trials Coffea arabica cv. Cauvery (Catimor) Journal Coffee Research 24(2): 87-96. Srinivasan, V.R.; Biswas, S.R.; Ramachander, P.R.; Reddy, B.M.C.; Prakash, G.S.; Dass, H.C. (1982). Estimation optimum size shape plots blocks pineapple yield trials. Singapore Journal Primary Industries 10(2): 107-115. https://eurekamag.com/research/001/074/001074791.php Paywall. Tageldin, Mohamed hany Ahmed (1989). Effect plot size, block size, block shape performance ryegrass-alfalfa mixtures orchardgrass. Thesis (Ph.D)–University Wisconsin–Madison, 1989. found. Physical copy Univ Wisconsin Madison. TODO Upadhyay, S. M., Prajapati, B.H., Raja, K.R.V. Darji, V.B. (1994). Optimum plot size summer paddy Navsari zone Gujarat. Gujarat Agricultural University Research Journal, 19, 92-97. found. Vaidyanathan, M. (1934). method covariance applicable utilization previous crop records judging improved precision experiments. Ind. J. Agric. Sci., 4, 327-42. found. data 24 plots. TODO Weber, Charles Robert. 1941. Statistical analysis uniformity trial soybeans reference plot size shape comparison efficiency various experimental designs. Univ Illinois. Thesis. https://-share-uiu.primo.exlibrisgroup.com/permalink/01CARLI_UIU/gpjosq/alma99265257912205899 found. Physical copy Univ Illinois. TODO Wray, William Dean (1941). Applications Uniformity Trials. PhD, Cornell University. https://newcatalog.library.cornell.edu/catalog/302914 found. Physical copy Cornell. Yates, F., Vernon, . J. Nelson, S. W. (1964). example analysis uniformity trial data electronic computer. Empire Journal Experimental Agriculture. 32 (125). https://eurekamag.com/research/014/342/014342010.php found. Physical copy UNL Storage. TODO Yun, K.H.; Park, S.H.; Lee, Y.M. (1968). estimation optimum plot size, shape number replications yield performance trials rice. Res. Rep. Office rur. Dev, Suwon, 11: 1, 53-7. Bibl. 21 https://eurekamag.com/research/014/341/014341511.php Zuhlke, Thomas Albert (1968). Uniformity Trial Pisum Sativum Estimating Optimum Plot Size Shape, Replication Number, Relative Efficiency Lattice Designs. https://search.library.wisc.edu/catalog/999876004102121 found. Physical copy Univ Wisconsin Madison. TODO","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"reviewed-papers","dir":"Articles","previous_headings":"","what":"Reviewed papers","title":"Notes on uniformity data","text":"Afonja, Biyi (1968). Analysis Uniformity Trial Cassava. Experimental Agriculture, 4(2), 135-141. https://doi.org/:10.1017/S0014479700022468 Reviewed. data. Aftab--Islam, M. Ashfaq, M. Idrees Ahmed. (1984) Sizes shapes plots field plot experiments wheat uniformity trial data. Pakistan Journal Agricultural Sciences, Volume 21, Issue 3,4. https://www.tehqeeqat.com/english/articleDetails/36510 Reviewed. data. Ahring, R. M., Morrison, R. D., & Wilhite, M. L. (1959). Uniformity Trials Germination Switchgrass Seed 1. Agronomy Journal, 51(12), 734-737. Aly, .E.; Salem, S..; Shalaan, M.. (1978). Optimum plot size shape relative efficiency different designs yield trials rice Oryza sativa L. Alexandria Journal Agricultural Research 26(2): 317-326 https://eurekamag.com/research/000/711/000711675.php found. Ansari, M. . ., G. K. Sant (1943). Study Soil Heterogeneity Relation Size Shape Plots Wheat Field Raya (Muhra District). Ind. J. Agr. Sci, 13, 652-658. https://archive.org/details/.ernet.dli.2015.271748 agridat::ansari.wheat.uniformity Arny, . C. H. K. Hayes. (1918) Experiments field technic plot tests. J. Agric. Res., 15, 251-262. Reviewed. data. Assis, Janilson & Sousa, Roberto & Linhares, Paulo & Cardoso, Eudes & Rodrigues, Walter & Pereira, Joaquim & Sousa, Robson & Medeiros, Aline & Silva, Neurivan & Andrade, Anderson & Gomes, Geovanna & Santos, Mateus & Alves, Lunara. (2020). Optimum plot size field experiments sesame. Australian Journal Crop Science. 1957-1960. https://doi.org/10.21475/ajcs.20.14.12.2828. Reviewed. data. Awake, Girma Taye; Amsal Tarekegne; D. G. Tanner. (2000). “Estimation optimum plot dimensions replication number wheat experimentation Ethiopia.” African crop science journal 8.1 (2000): 11-23. https://repository.cimmyt.org/handle/10883/2321 Reviewed. data. Bailey, M. ., Trought, T. (1926). account experiments carried determine experimental error field trials cotton Egypt. Egypt Ministry Agriculture, Technical Science Service Bulletin 63, Min. Agriculture Egypt Technical Science Bulletin 63. https://www.google.com/books/edition/Bulletin/xBQlAQAAIAAJ?pg=PA46-IA205 agridat::bailey.cotton.uniformity Baker, G. . Huberty, MR Veihmeyer, FJ. (1952) uniformity trial unirrigated barley ten years’ duration. Agronomy Journal, 44, 267-270. https://doi.org/10.2134/agronj1952.00021962004400050011x agridat::baker.barley.uniformity Baker, G. .; R. E. Baker (1953). Strawberry Uniformity Yield Trials. Biometrics, 9, 412-421. https://doi.org/10.2307/3001713 agridat::baker.strawberry.uniformity Baker, G. . E. B. Roessler (1957). Implications uniformity trial small plots wheat. Hilgardia, 27, 183-188. https://hilgardia.ucanr.edu/Abstract/?=hilg.v27n05p183 agridat::baker.wheat.uniformity Bakke, Olaf Andreas. (1988). Tamanho e forma ótimos de parcelas em delineamentos experimentais. Dissertation. Escola Superior de Agricultura Luiz de Queiroz. https://teses.usp.br/teses/disponiveis/11/11134/tde-20181127-160559/pt-br.php Used Gomez rice uniformity. Bancroft, T. . et a1., (1948). Size Shape Plots Distribution Plot Yield Field Experiments Peanuts. Alabama Agricultural Experiment Station Progress Report, sec. 39. Table 4, page 6. http://hdl.handle.net/11200/1345 agridat::bancroft.peanut.uniformity Barber, Clarence W. (1914). Note Influence Shape Size Plot Tests Varieties Grain. Maine Agr. Expt. Sta. Bul. 226:76-84. 1914. https://www.google.com/books/edition/Annual_Report/QF84AQAAMAAJ Reviewed. data. Batchelor, L. D.; H. S. Reed. (1918). Relation variability yields fruit trees accuracy field trials. J. Agric. Res, 12, 245–283. https://books.google.com/books?id=Lil6AAAAMAAJ&lr&pg=PA245 agridat::batchelor.uniformity Bayoumi, Tarek Youssef; S El-Demardash. Effect water deficit soil variability, plot size, shape number replications chickpea. https://www.academia.edu/21549629/Effect_of_Water_Deficit_on_Soil_Variability_Plot_size_Shape_and_Number_of_Replications_for_Chickpea Reviewed. data. Beard, J.S. (1954). Investigations experimental plot technique black wattle. Empire Forestry Review, 33, 158-171. https://www.jstor.org/stable/42602653 Reviewed. data. Beattie, J. H. Victor R. Boswell E. T. Batten. (1936). Pot plant variation Virginia Peanuts. Proceedings American Society Horticultural Science, 34. https://archive.org/details/dli.ernet.26569/page/585/mode/2up?q=beattie Reviewed. data. Bhatt, Hitesh M. (1998). Plot technique Potato. AAU, Anand. https://krishikosh.egranth.ac./handle/1/5810043200 Reviewed. data. Bose, R. D. (1935). soil heterogeneity trials Pusa size shape experimental plots. Ind. J. Agric. Sci., 5, 579-608. Table 1 (p. 585), Table 4 (p. 589), Table 5 (p. 590). https://archive.org/details/.ernet.dli.2015.271739 agridat::bose.multi.uniformity Bose, S. S.; Ganguli, P. M., Mahalanobis, P. C. frequency distribution plot yields optimum size plots uniformity trial rice Assam. Indian J. Agric. Sci., 1936, 6 part 5, pp. 1107-22. https://archive.org/details/.ernet.dli.2015.271737/page/n1263/mode Reviewed. data. Bose, S. S.; Khanna, K L; Mahalanobis, P C Note optimum shape size plots sugarcane experiments Bihar. India Journal Agricultural Science 9, 807-816 https://hdl.handle.net/10263/1896 http://library.isical.ac.:8080/jspui/handle/10263/1896 Reviewed. data. Boyhan, George E.; David B. Langston; Albert C. Purvis; C. Randell Hill. (2003). Research determine suitable plot size number replications field trials sugarbeet. J. Amer. Soc. Hort. Sci., 128, 409-424. Reviewed. data. Compared Hatheway’s method Cochran Cox’s method, latter gave smaller number plots. Boyhan, George E., David B. Langston, Albert C. Purvis, C. Randell Hill. (2003). Optimum plot size number replications short-day onions yield, seedstem formation, number doubles, incidence foliar diseases. J. Amer. Soc. Hort. Sci., 128, 409-424. https://doi.org/10.21273/JASHS.128.3.0409 Reviewed. data. Boyhan, George E. (2013). Optimum Plot Size Number Replications Determining Watermelon Yield, Fruit Size, Fruit Firmness, Soluble Solids. HortScience, 48, 1200-1208. https://doi.org/10.21273/HORTSCI.48.9.1200 Reviewed. data. Bradley, P. L. (1941). study variation productivity number fixed plots field 2. Dissertation: University West Indies. Appendix 1a, 1b, 1c, 1d. https://uwispace.sta.uwi.edu/dspace/handle/2139/41259 agridat::bardley.multi.uniformity Brewer, . C. R. Mead (1986). Continuous Second Order Models Spatial Variation Application Efficiency Field Crop Experiments. Journal Royal Statistical Society. Series (General), 149(4), 314–348. See page 325. http://doi.org/10.2307/2981720 Reviewed. data. Used StVincent cotton data found Rothamsted. agridat::hutchinson.cotton.uniformity Brim, C. . D. D. Mason. (1959). Estimates Optimum Plot Size soybean Yield Trials. Agron. Journal, 51: pp. 331-335. https://doi.org/10.2134/agronj1959.00021962005100060008x Reviewed. data. Brown, .R. Morris, H.D. (1967), Estimation Optimum Plot Size Shape Grain Sorghum Yield Trials. Agron. J., 59: 576-577. https://doi.org/10.2134/agronj1967.00021962005900060026x Reviewed. data. Chaves, L. J.; J. B. Miranda Filho (1992). Plot size progeny selection maize (Zea maysL.). Theoretical Applied Genetics, 84, 963–970. https://doi.org/10.1007/bf00227411 Reviewed. data. Cheesman, E. E., Pound, F. J. Uniformity trials Cacao. Trop. Agric., 9, 277-88. Reviweed. data. Christidis, Basil G (1931). importance shape plots field experimentation. Journal Agricultural Science, 21, 14-37. Table VI, p. 28. https://doi.org/10.1017/S0021859600007942 agridat::christidis.wheat.uniformity Christidis, B. G. (1939). Variability Plots Various Shapes Affected Plot Orientation. Empire Journal Experimental Agriculture 7: 330-342. Table 1. agridat::christidis.cotton.uniformity G. Peter Y. Clarke Katia T. Steanova. (2011). Optimal design early-generation plant-breeding trials unreplicated partially replicated test lines. Aust. N. Z. Jour. Stat., 53, 461-480. Reviewed. data. Collison, R. C. J. D. Harlan. Technical bulletin 194. relationships soil properties performance Baldwin Greening Apple Trees. New York State Agricultural Experiment Station https://babel.hathitrust.org/cgi/pt?id=uiug.30112019767000 Reviewed. data trees. Collison, R. C. J. D. Harlan. Technical bulletin 126. Annual variation apple yields - possible cause. New York State Agricultural Experiment Station https://babel.hathitrust.org/cgi/pt?id=uiug.30112019766267 Reviewed. data. Conners, Helen Elizabeth (1951). Field plot techniques sweet potatoes obtained uniformity trial data. Master’s Thesis, Iowa State University. digital copy available. Reviewed. data. Coombs, G. E. J. Grantham (1916). Field Experiments Interpretation results. Agriculture Bulletin Federated Malay States, 7. https://www.google.com/books/edition/The_Agricultural_Bulletin_of_the_Federat/M2E4AQAAMAAJ agridat::coombs.rice.uniformity Cordeiro, Célia Maria Torres, João Eustáquio Cabral de Miranda, Jarbas Campos. “Tamanho de parcelas e número de repetições em experimento de batatas.” Pesquisa Agropecuária Brasileira 17.9 (1982): 1341-1348. Reviewed. data. Crews, Julian W., Jones, G.L. Mason, D.D. (1963). Field Plot Technique Studies Flue-Cured Tobacco. . Optimum Plot Size Shape. Agron. J., 55: 197-199. https://doi.org/10.2134/agronj1963.00021962005500020033x Reviewed. data. Damor, Bhavika. (2019). Comparison uniformity trial data experimental data plot technique. Department Agricultural Statistics, B. . College Agriculture, Anand Agricultural University. https://krishikosh.egranth.ac./handle/1/5810169594 Reviewed. used. data 3 uniformity trials, data just looks strange. Appendix , 500 numbers 9 “4” hundredths place. expect see 50. data collected non-kg weights converted kg. Appendix III, plots along left edge measured 3 decimals (0.993, 0.631), field measured 2 decimals. Weird. da Silva, Enedino Correa. (1974). Estudo tamanho e forma de parcelas para experimentos de soja (Plot size shape soybean yield trials). Pesquisa Agropecuaria Brasileira, Serie Agronomia, 9, 49-59. Table 3, page 52-53. agridat::dasilva.soybean.uniformity da Silva, Willerson Custódio; Mário Puiatti; Paulo Roberto Cecon; Leandro Roberto de Macedo; Tocio Sediyama. (2019) Estimation optimum experimental plot size taro culture. Ciência Rural, Santa Maria, v.49 https://doi.org/10.1590/0103-8478cr20180440 Reviewed. data. da Silva, Luiz Fernando de Oliveira; Katia Alves Campos; Augusto Ramalho de Morais; Franciane Diniz Cogo; Carolina Ruiz Zambon. Optimal plot size experiments radish. Revista Ceres 59(5):624-629 https://doi.org/10.1590/S0034-737X2012000500007 Reviewed. data. de Assis, J. P., de Sousa, R. P., Rodrigues, W. M., Linhares, P. C. F., Cardoso, E. de ., Soares Pereira, M. F., Araújo Paula, J. . de, & Oliveira, . da M. (2019). Optimum Size Shape Experimental Units Cassava Cropping. Journal Experimental Agriculture International, 31(6), 1–10. https://doi.org/10.9734/jeai/2019/v31i630090 Reviewed. data. de Sousa, Roberto Pequeno Assis, Janilson Pinheiro de Rodrigues, Walter Martins Linhares, Paulo César Ferreira Cardoso, Eudes de Almeida Pereira, Maria Francisca Soares Paula, José Aluisio de Araújo (2018). Optimum Plot Size Experimental Cassava Production. Journal Agricultural Science, 10, 231-237. Reviewed. data. https://doi.org/10.5539/jas.v10n10p231 de Sousa, Roberto Pequeno; Paulo Sérgio Lima e Silva; Janilson Pinheiro de Assis; Paulo Igor Barbosa e Silva; Júlio César DoVale. 2015. Optimum plot size experiments sunflower. Revista Ciencia Agronomica, 46, 170-175. https://doi.org/10.1590/S1806-66902015000100020 Reviewed. data. Precision increased plot sizes 5 m^2. Davies, J. Griffiths (1931). Experimental Error Yield Small Plots Natural Pasture. Council Scientific Industrial Research (Aust.) Bulletin 48. Table 1. agridat::davies.pasture.uniformity Day, James Westbay (1916). relation size, shape, number replications plats probable error field experimentation. Dissertation, University Missouri. Table 1, page 22. https://hdl.handle.net/10355/56391 agridat::day.wheat.uniformity Dorph-Petersen, K. 1949. Parcelfordeling markforsog. Tidsskrift Planteavl. 52, 111-175 https://dca.au.dk/publikationer/historiske/planteavl/ Reviewed. data. see anything looked like field 12x43 plots. Mentioned Kristensen (2003). Draper, Arlen D. (1959). Optimum plot size shape safflower yield tests. Dissertation. University Arizona. https://hdl.handle.net/10150/319371 agridat::draper.safflower.uniformity Eden, T. E. J. Maskell. (1928). influence soil heterogeneity growth yield successive crops. Jour Agricultural Science, 18, 163-185. https://archive.org/stream/.ernet.dli.2015.25895/2015.25895.Journal--Agricultural-Science-Vol-xviii-1928#page/n175 agridat::sawyer.multi.uniformity Eden, T. (1931). Studies yield tea. 1. experimental errors field experiments tea. Agricultural Science, 21, 547-573. https://doi.org/10.1017/S0021859600088511 agridat::eden.tea.uniformity Elliott, F. C., Darroch, J.G. Wang, H.L. (1952). Uniformity trials spring wheat. Agronomy Journal, 44, 524-528. https://doi.org/10.2134/agronj1952.00021962004400100005x Reviewed. data. England, F. (1968). Non-sward densities assessment yield Italian ryegrass: II. Convenient plot block size shape. Journal Agricultural Science, 70(02), 105. https://doi.org/10.1017/s0021859600010923 Reviewed. data. Ersboll, Annette. Spatial Temporal Variations Applications Agriculture. “Models action”, Proceedings seminar series 1995/1996. Reviewed. data. Facco, Giovani; Cargnelutti Filho Alberto; Mendonça Alves Bruna; et. al. (2017). Basic experimental unit plot sizes method maximum curvature coefficient variation sunn hemp. African journal agricultural research 12(6):415-423 https://doi.org/10.5897/AJAR2016.11814 Reviewed. data. Faria, Glaucia Amorim Lopes, Beatriz Garcia Peixoto, Ana Patrícia Bastos Ferreira, Antonio Flávio Arruda Maltoni, Kátia Luciene Pigari, Lucas Bernardo (2020). Experimental plot size passion fruit. Revista Brasileira de Fruticultura, 42. http://dx.doi.org/10.1590/0100-29452020125. Reviewed. data. Filho, Alberto; Cargnelutti; Marcos Toebe; Cláudia Burin; André Luis Fick; Gabriele Casarotto. (2011). Plot sizes uniformity assays turnip. Ciência Rural 41.9 (2011): 1517-1525. https://doi.org/10.1590/S0103-84782011005000119 Reviewed. data. Filho, Alberto Cargnelutti; Marcos Vinícius Loregian, Gabriel Elias Dumke, Felipe Manfio Somavilla, Samanta Luiza da Costa, Lucas Fillipin Osmari, Bruno Fillipin Osmari (2021). Optimal plot size buckwheat. https://doi.org/10.5433/1679-0359.2021v42n2p501 https://www.uel.br/revistas/uel/index.php/semagrarias/article/view/39448/29330 Reviewed. data Filho, Alberto Cargnelutti, Ismael Mario Marcio Neu, Valeria Escaio Bubans, Felipe Manfio Somafilla, Bruno Fillipin Osmari. (2022). Method estimating optimal plot size Black Oat, Common Vetch, Forage Turnip intercropping. http://dx.doi.org/10.1590/1983-21252022v35n425rc Reviewed. data. Fleming, .., Roger, T.H. Bancroft, T.. (1957). Field plot technique hybrid corn Alabama conditions. Agronomy Journal, 49, 1-4. https://doi.org/10.2134/agronj1957.00021962004900010001x Reviwed. data. Forster, Howard Carlyle Vasey, . J. (1928). Experimental error field trials Australia. Proceedings Royal Society Victoria. New series, 40, 70–80. https://www.biodiversitylibrary.org/page/54367272 Reviewed. agridat::forster.wheat.uniformity Frey, K.J. Baten, W.D. (1953). Optimum Plot Size Oat Yield Tests. Agron. J., 45: 502-504. https://doi.org/10.2134/agronj1953.00021962004500100012x Reviewed. data. Garber, RJ McIlvaine, TC Hoover, MM. (1926). study soil heterogeneity experiment plots. Jour Agr Res, 33, 255-268. Tables 3, 5. https://naldc.nal.usda.gov/download/IND43967148/PDF agridat::garber.multi.uniformity Garber, R. J. T. C. McIlvaine M. M. Hoover (1931). Method Laying Experimental Plats. Journal American Society Agronomy, 23, 286-298. https://archive.org/details/.ernet.dli.2015.229753/page/n299 agridat::garber.multi.uniformity Gardenhire, James H. (1949). Field Plot Technique Plant Characteristic Studies Varieties Castor Plants. Thesis, Okla. Agr Mech. Coll., Stillwater, Okla. https://shareok.org/handle/11244/43284 Reviewed. data. Garner, F. H.; Grantham, J.; Sanders, H. G. (1934). value covariance analysing field experimental data. Journal Agricultural Science, 24(2), 250–. https://doi:10.1017/s0021859600006626 George, M. V.; M. Sannamarappa (1984). Uniformity trial: Size, Shape, Direction Experimental Plots Turmeric. Proceedings Sixth Symposium Plantation Crops, p. 429. https://archive.org/details/.ernet.dli.2015.502074/page/n453 Reviewed. data. Gomez, K.. R. C. Alicbusan (1969). Estimation optimum plot size rice uniformity data. Philippine Agriculturist. 52, 586-601 https://www.google.com/books/edition/The_Philippine_Agriculturist/2irOAAAAMAAJ found, probably data used Gomez & Gomez (1984). Gomez, K.. Gomez, .. (1984). Statistical Procedures Agricultural Research. Wiley-Interscience. Page 481. agridat::gomez.rice.uniformity Gopalakrishna, S. (1992). Optimum plot size shape, block size shape relative efficiency designs field experiments navane (Setaria italica). Thesis. https://krishikosh.egranth.ac./handle/1/5810120871 Reviewed. data. Goulden, C. H. (1937). Efficiency field trials pseudo-factorial incomplete randomized block methods. Canadian Journal Research, 15. https://doi.org/10.1139/cjr37c-020 Reviewed. paper used uniformity trials papers (Batchelor, Wiebe, etc). Goulden, C. H. (1939). Methods statistical analysis, 1st ed. Page 18. https://archive.org/stream/methodsofstatist031744mbp version 20x20. full 48x48 data obtained Rothamsted. agridat::goulden.barley.uniformity Goyal, Manoj Kumar. (1998). Study uniformity trial wheat (Triticum aestivum L.). Thesis, Haryana Agricultural University. https://krishikosh.egranth.ac./handle/1/5810078304 . Reviewed. data. Guimarães, B. V. C., de Carvalho, . J., Aspiazú, ., da Silva, L. S., da Silva, R. R. P., Pimenta, . M. L., & Moura, M. M. . (2021). Optimal plot size experimentation common beans (Phaseolus vulgaris L.) northern region Minas Gerais, Brazil: Experimental plots. Revista de la Facultad de Ciencias Agrarias UNCuyo, 55-63, 1853-8665. https://doi.org/10.48162/rev.39.039 Reviewed. data. Guimarães, Bruno Vinícius Castro, et al. (2020). Optimal plot size experimental trials Opuntia cactus pear. Acta Scientiarum. Technology 42 (2020): e42579-e42579. https://doi.org/10.5539/jas.v11n18p206 Reviewed. data. Gupton, C.L. (1972). Estimates Optimum Plot Size Shape Uniformity Data Burley Tobacco (Nicotiana tabacum L.). Agron. J., 64, 678-682. https://doi.org/10.2134/agronj1972.00021962006400050038x Reviewed. data. Haapanen, Matti (1992). Effet plot size shape efficiency progeny tests. Silva Fennica, 26, 201-209. Reviewed. data. Handa, D. P.; Sreenath, P. R., & Rajpali, S. K. (1995). Uniformity trial lucerne grown fodder. Grass Forage Science, 50(3), 209–216. https://doi.org/10.1111/j.1365-2494.1995.tb02316.x Reviewed. data. Hansen, Niels Anton (1914). Prøvedyrkning paa Forsøgsstationen ved Aarslev. Tidsskrift landbrugets planteavl, Bind 21, page 553. Danish. https://dca.au.dk/publikationer/historiske/planteavl/ Reviewed. agridat::hansen.multi.uniformity Haque, H. N. Azad, N. K. Jha, R. N. Sing, S. N. (1988). Optimum Size Shape Plots Wheat. Annals Agricultural Research, 9, 165-170. https://eurekamag.com/research/001/901/001901913.php Reviewed. data. criterion selection optimum plot size CV point maximum curvature. Hariharan, V., Jacob Thomas, M. George, K.C. (1986). Optimum size shape plots field experiments brinjal. Agricultural Research Journal Kerala, 24(2), 189-194. https://krishikosh.egranth.ac./handle/1/5810100010 Reviewed. data. Haritonenko, Pavlo. Neue Präzisionsmethoden auf den Versuchsfeldern. Arbeiten der landw. Versuchsstation Iwanowskoje 1904-06, S. 159. Russian German summary. Original found. Data appears Roemer (1920). Harris, J Arthur Scofield, CS. (1920). Permanence differences plats experimental field. Jour. Agr. Res., 20, 335-356. https://naldc.nal.usda.gov/catalog/IND43966236 agridat::harris.multi.uniformity Harris, J. Arthur Scofield, CS. (1928). studies permanence differences plots experimental field. Jour. Agr. Res. 36, 15–40. https://naldc.nal.usda.gov/catalog/IND43967538 agridat::harris.multi.uniformity Harris, J.. 1920. Practical universality field heterogeneity factor influencing plot yields. Journal Agricultural Research, 19, 279–314. Page 296-297. https://books.google.com/books?id=jyEXAAAAYAAJ&pg=PA279 agridat::harris.multi.uniformity Hartman, J. D.; E. C. Stair (1942). Field plot technique studies tomatoes. Proceedings American Society Horticultural Science, 41, 315-320. https://archive.org/details/.ernet.dli.2015.240678 agridat::hartman.tomato.uniformity Hatheway, W. H., E. J. Williams. (1958). Efficient estimation relationship plot size variability crop yields. Biometrics, 14, 207-222. https://doi.org/10.2307/2527785 Reviewed. data. Hatton, R. G.; N. H. Grubb & R. C. Knight (1928) Black Currant Variety Trials: Reliability Results. Journal Pomology Horticultural Science, 4:4, 200-220. https://doi.org/10.1080/03683621.1925.11513282 used. data 21 bushes * 4 years 52 bushes * 4 years. Hayes, H. K. . C. Arny (1917). Experiments field technic rod row tests. J. Agr. Res. 11, 399-419. Reviewed. data. Heath, O.V.S. (1970). Investigation Experiment. Table 1. https://archive.org/details/investigationbye0000heat agridat::heath.raddish.uniformity Heidmann, T. (1988). Startkarakterisering af arealer til systemforskning . Forsøgsarealer, måleprogram og metoder. Tidsskrift Planteavls Specialserie. S 1958, 89 pp. https://dca.au.dk/publikationer/historiske/planteavlspecial/ data. obvious data found field 26x20 plots. Mentioned Kristensen (2003). Heidmann, T. (1989). Startkarakterisering af arealer til systemforskning: IV Resultater fra arealet ved Jyndevad. Tidsskrift Planteavls Specialserie. S 2021, 163 pp. https://dca.au.dk/publikationer/historiske/planteavlspecial/ data. obvious data found field 26x20 plots. Mentioned Kristensen (2003). Hidalgo, Eduardo Calero Calero (1965). Estudio Del Tamano Y Forma De La Parcela Experimental Para Ensayos De Campo En Frijol (Phaseolus vulgaris L.). Instituto Interamericano de Ciencias Agricolas de la OEA. https://www.google.com/books/edition/Estudio_Del_Tamano_Y_Forma_De_La_Parcela/rNIOAQAAIAAJ data. Spanish. Hodnett, G.E. Uniformity Trial Groundnuts. Journal Agricultural Science, 43, 323-328. https://doi.org/10.1017/S002185960005749X Reviewed. data. Holle, Michael. 1960. Plot technique field evaluation three characters lima bean. Master’s Thesis, Iowa State University. digital copy available. Reviweed. data. Holtsmark, G Larsen, BR (1905). Om Muligheder indskraenke de Fejl, som ved Markforsog betinges af Jordens Uensartethed. Tidsskrift Landbrugets Planteavl. 12, 330-351. (Danish) https://books.google.com/books?id=MdM0AQAAMAAJ&pg=PA330 https://dca.au.dk/publikationer/historiske/planteavl/ agridat::holtsmark.timothy.uniformity Hudson, H. G. (1939). Population studies wheat: 1. Sampling. J. Agric. Sci, 29, 76-109. https://doi.org/10.1017/s0021859600051571 Reviewed. data. researchers collected 7200 plots * 13 traits = 93,000 data points. Evaluation possible use “Hollerith equipment”. Humada-Gonzalez, G.G. (2013). Estimação tamanho otimo de parcela experimental em experimento com soja. Dissertation, Universidade Federal de Lavras. http://repositorio.ufla.br/jspui/handle/1/744 Reviewed. data published data agridat::dasilva.soybean.uniformity. Humada-Gonzalez, G.G.; Barbuio, R.; Cardozo, N.; MOREIRA, J.M.; Llanes Oviedo, L. Estimação tamanho otimo de parcela experimental em experimento com soja transgenica. : semana de iniciação cientifica e seminario integrado da Pos-graduação, 2018 Goias Brasil semana de iniciação cientifica e seminario integrado da Pos-graduação. 2018. Humada González G. G., Ramalho de Morais , Caballero Mendoza CA, Bortolini J, Rodrigues Liska G. (2018). Estimation Optimum Plot Size Experimentation Sweet Potato. Agrociencia Uruguay, 22(2):e13. https://agrocienciauruguay.uy/index.php/agrociencia/article/view/13 Reviewed. data. Idrees, Nadia; Muhammad Inayat Khan (2009). Design improvement using uniformity trials experimental data. Pak. J. Agri. Sci., Vol. 46(4), 2009. https://pakjas.com.pk Reviewed. data. Igue, Toshio; Ademar Espironelo, Heitor Cantarella, Erseni Joao Nelli. (1991). Tamanho e forma de parcela experimental para cana-de-acucar (Plot size shape sugar cane experiments). Bragantia, 50, 163-180. Appendix, page 169-170. https://doi.org/10.1590/S0006-87051991000100016 agridat::igue.sugarcane.uniformity Immer, F. R. (1932). Size shape plot relation field experiments sugar beets. Jour. Agr. Research, 44, 649–668. https://naldc.nal.usda.gov/download/IND43968078/PDF agridat::immer.sugarbeet.uniformity Immer, F. R. S. M. Raleigh (1933). studies size shape plot relation field experiments sugar beets. Journal Agricultural Research, 47, 591-598. https://naldc.nal.usda.gov/download/IND43968370/PDF agridat::immer.sugarbeet.uniformity Iyer, P. V. Krishna (1942). Studies wheat uniformity trial data. . Size shape experimental plots relative efficiency different layouts. Indian Journal Agricultural Science, 12, 240-262. Page 259-262. https://archive.org/stream/.ernet.dli.2015.7638/2015.7638.-Indian-Journal--Agricultural-Science-Vol-xii-1942#page/n267/mode/2up agridat::iyer.wheat.uniformity Jaggard, K. W. (1975). size shape plots sugar-beet experiments. Annals Applied Biology, 80(3), 351–357. https://doi.org/10.1111/j.1744-7348.1975.tb01641.x Reviewed. data. Jain, M. B. Studies techniques field trials range lands . Size, Shape arrangement plots. Jain, M. B. R. K. Bohra. Size Shape Plots Blocks field Experiments Lasiurus Sindicus. Reviewed. data. James, W. C., & Shih, C. S. (1973). Size Shape Plots Estimating Yield Losses Cereal Foliage Diseases. Experimental Agriculture, 9(01), 63. https://doi.org/10.1017/s0014479700023693 Reviewed. data. Jegorow, M. (1909). Zur Methodik des feldversuches. Russian Journ Expt Agric, 10, 502-520. https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/510jAQAAIAAJ?hl=en uniformity trial oats. agridat::jegorow.oats.uniformity Joachim, .W.R. 1935. uniformity trial coconuts. Trop. Agric. Mag. Ceylon. Agric. Soc. 85:198-207. https://eurekamag.com/research/013/298/013298524.php https://southasiacommons.net/artifacts/2343967/-tropical-agriculturist/3172871/ Reviewed. data, blocks different sizes. used. Johnson, .J. & Murphy, H.C. 1943. Lattice lattice square designs oat uniformity data varietal trials. J. Agric. Sci., 22, 366-372. https://doi.org/10.2134/agronj1943.00021962003500040004x data. contour map fertility. Jones, W.W.; T.W. Embleton; C.B. Cree. (1957). Number Replications Plot Sizes Required Reliable Evaluation Nutritional Studies Yield Relationships Citrus Avocado. American Society Horticultural Science, 69:208-216. Reviewed. data. Fruit yields much variable quality factors. Jones, Marcus; Marin Harbur, Ken J. Moore (2021). Automating Uniformity Trials Optimize Precision Agronomic Field Trials. Agronomy 2021, 11, 1254. https://doi.org/10.3390/agronomy11061254 agridat::jones.corn.uniformity Data 12x12 corn expt. Jua, Junagadh. Optimum plot size field experiments tomato – statistical investigation. Thesis, Junagadh Agricultural University. https://krishikosh.egranth.ac./handle/1/5810006490. Reviewed. data. Justesen, S. (1932). Influence Size Shape Plots Precision Field Experiments Potatoes. Journal Agricultural Science, 22(2), 366-372. doi:10.1017/S0021859600053685 https://doi.org/10.1017/S0021859600053685 Reviewed. data. Conclusion: Long, narrow plots efficient (unless competition rows). Kadam, B. S. Kadam; S. M. Patel. (1937). Studies Field-Plot Technique P. Typhoideum Rich. Empire Journal Experimental Agriculture, 5, 219-230. https://archive.org/details/.ernet.dli.2015.25282 agridat::kadam.millet.uniformity Kalamkar, R.J. (1932). Experimental Error Field-Plot Technique Potatoes. Journal Agricultural Science, 22, 373-385. https://doi.org/10.1017/S0021859600053697 agridat::kalamkar.potato.uniformity Kalamkar, R. J (1932). Study Sampling Technique Wheat. Journal Agricultural Science, Vol.22(4), pp.783-796. https://doi.org/10.1017/S0021859600054599 agridat::kalamkar.wheat.uniformity Katyal, Visay (1994). Relative efficiency neighbouring techniques block design field experiments wheat Sodic soils. J. Ind. Soc. Ag. Stat. 46, 231-234. Reviewed. data. Kaushik, L. S., R. P. Singh, T. P. Yadava. (1977). uniformity trial mustard [India]. Indian Journal Agricultural Sciences. Reviewed. data. Kavitha, B. (2010). Study optimum plot size optimum plot shape soybean crop. https://krishikosh.egranth.ac./handle/1/84302 Reviewed. data. Keller, Kenneth R. (1949). Uniformity Trial Hops, Humulus lupulus L., Increasing Precision Field Experiments. https://doi.org/10.2134/agronj1949.00021962004100080011x Reviewed. data. Keller, K.R. (1951). Relative Efficiency Rectangular Triple Rectangular Lattice Designs Using Hop Uniformity Trial Data. Agron. J., 43: 93-96. https://doi.org/10.2134/agronj1951.00021962004300020009x Reviewed. data. Kempton, R. . C. W. Howes (1981). use neighbouring plot values analysis variety trials. Applied Statistics, 30, 59–70. https://doi.org/10.2307/2346657 agridat::kempton.barley.uniformity Kerr, H. W. (1939). Notes plot technique. Proc. Internat. Soc. Sugarcane Technol. 6, 764-778. agridat::kerr.sugarcane.uniformity Khan, Abdur Rashid Jage Ram Dalal (1943). Optimum Size Shape Plots Brassica Experiments Punjab. Sankhyā: Indian Journal Statistics ,6, 3. Proceedings Indian Statistical Conference 1942 (1943), pp. 317-320 (4 pages). https://www.jstor.org/stable/25047782 agridat::khan.brassica.uniformity Khan, Mujahid; Ramesh Chander Hasija; Des Raj Aneja; Manish Kumar Sharma (2016). uniformity trial Indian mustard determination optimum size shape blocks. Journal Applied Natural Science 8 (3): 1589 - 1593. Reviewed. data. Khan, Mujahid & R. C. HASIJA NITIN TANWAR (2017). Optimum size shape plots based data uniformity trial Indian Mustard Haryana. MAUSAM, 68, 67-74. https://doi.org/10.54302/mausam.v68i1.434 Reviewed. data. Khin, San. 1950. Investigation relative costs rice experiments based efficiency designs. Dissertation: Imperial College Tropical Agriculture (ICTA). Appendix XV. https://uwispace.sta.uwi.edu/dspace/handle/2139/42396 agridat::khin.rice.uniformity Khurana, Alka. (1991). Study Uniformity Trial Soyabean. Thesis, Haryana Agricultural University. https://krishikosh.egranth.ac./handle/1/5810076525 Reviewed. data. Smith’s Law. Kiesselbach, Theodore . (1917). Studies Concerning Elimination Experimental Error Comparative Crop Tests. University Nebraska Agricultural Experiment Station Research Bulletin . 13. Pages 51-72. https://archive.org/details/StudiesConcerningTheEliminationOfExperimentalErrorInComparativeCrop https://digitalcommons.unl.edu/extensionhist/430/ agridat::kiesselbach.oats.uniformity Koch, E.J. Rigney, J.. (1951). Method Estimating Optimum Plot Size Experimental Data. Agron. J., 43: 17-21. https://doi.org/10.2134/agronj1951.00021962004300010005x Reviewed. data. Idea: footnote paper says paper part MS Thesis North Carolina State. unable find online. Kulkarni, R. K., Bose, S. S., Mahalanobis, P. C. (1936). influence shape size plots effective precision field experiments sorghum. Indian J. Agric. Sci., 6, 460-474. Appendix 1, page 172. https://archive.org/details/.ernet.dli.2015.271737 agridat::kulkarni.sorghum.uniformity Kristensen, R. K. (1925). Anlaeg og Opgoerelse af Markforsoeg. Tidsskrift landbrugets planteavl, Vol 31, 464-494. Fig 1, pg. 467. https://dca.au.dk/publikationer/historiske/planteavl/ agridat::kristensen.barley.uniformity Kristensen, K. (2003). Incomplete split-plots variety trials - based -designs. : Biuletyn Oceny Odmian, 31, pp. 7-17. Reviewed. data. Refers papers uniformity trials. Krysczun, Dionatan Ketzer; Lúcio, Alessandro Dal’Col; Sari, Bruno Giacomini; Diel, Maria Inês; Olivoto, Tiago; Santana, Cinthya Souza; Ubessi, Cassiane; Schabarum, Denison Esequiel (2018). Sample size, plot size number replications trials Solanum melongena L.. Scientia Horticulturae, 233(), 220–224. https://doi.org/10.1016/j.scienta.2018.01.044 Reviewed. data. Krysczun, Dionatan, Alessandro D. Lúcio, Bruno G. Sari, Maria . Diel, Tiago Olivoto, José . G. da Silva, Cinthya S. Santana, Patrícia J. Melo, & Sabrina M. Gomes. (2018). Size Uniformity Trial Affects Accuracy Plot Size Estimation Eggplant. Journal Agricultural Science; Vol. 10, . 11. https://www.researchgate.net/publication/328291020 Reviewed. data. Kuehl, R.O. Kittock, D.L. (1969). Estimate Optimum Plot Size Cotton Yield Trials. Agron. Journal, 61: 584-586. https://doi.org/10.2134/agronj1969.00021962006100040031x data. Kumar, Ajay. 1999. study uniformity trial sesame (Til) Sesamum indicum. https://krishikosh.egranth.ac./handle/1/5810078711. Reviewed. data. Kumar, Ajay; Kiran Kapoor; Gupta, S. C.; Hasija, R. C. Uniformity trial sesame Sesamum indicum. https://eurekamag.com/research/017/592/017592269.php found. find Kumar’s thesis, data. Lakhera, M.L.; M.. Ali (1996). Optimum plot size shape estimates sunflower yield trials. Journal Maharashtra Agricultural Universities 21(3): 350-353 Reviewed. data. Optimum plot size 20 units, 10 rows 2 m long. Lamb, J.., Dowdy, R.H., Anderson, J.L. Rehm, G.W. (1997). Spatial Temporal Stability Corn Grain Yields. Journal Production Agriculture, 10: 410-414. https://doi.org/10.2134/jpa1997.0410 Reviewed. data plots 5 years, scaled relative yield year, harvested area 20-foot long 60-foot long plot. Decided use. Lambert, Edmund B. (1934). Size arrangement plots yield tests cultivated mushrooms. Journal Agricultural Research, Vol 48, 971-980. https://naldc.nal.usda.gov/naldc/download.xhtml?id=IND43968493 Reviewed. used. Uniformity trial three locations mushrooms growth houses. Lander, P. E. et al. (1938). Soil Uniformity Trials Punjab . Ind. J. Agr. Sci. 8:271-307. agridat::lander.multi.uniformity Lavezo, André; Alberto Cargnelutti Filho, Cláudia Marques de Bem, Cláudia Burin, Jéssica Andiara Kleinpaul, Rafael Vieira Pezzini. Plot size number replications evaluate grain yield oat cultivars. Bragantia, Campinas, v. 76, n. 4, p.512-520, 2017. https://doi.org/10.1590/1678-4499.2016.410 Reviewed. data. Laycock, D. H. (1955). effect plot shape reducing errors tea experiments. Tropical Agriculture, 32, 107-114. agridat::laycock.tea.uniformity Lehmann, . Ninth Annual Report Agricultural Chemist Year 1907-08. Department Agriculture, Mysore State. [2nd-9th] Annual Report Agricultural Chemist. https://books.google.com/books?id=u_dHAAAAYAAJ agridat::lehmann.millet.uniformity Lessman, Koert James (1962). Comparisons methods testing grain yield sorghum. Iowa State University. Retrospective Theses Dissertations. Paper 2063. Appendix Table 17. https://dr.lib.iastate.edu/handle/20.500.12876/73575 agridat::lessman.sorghum.uniformity Lessman, K.J. Atkins, R.E. (1963). Optimum Plot Size Relative Efficiency Lattice Designs Grain Sorghum Yield Tests. Crop Science, 3: 477-481 https://doi.org/10.2135/cropsci1963.0011183X000300060006x Reviewed. See Lessman thesis data. agridat::lessman.sorghum.uniformity Li, HW Meng, CJ Liu, TN. 1936. Field Results Millet Breeding Experiment. Agronomy Journal, 28, 1-15. Table 1. DOI: 10.2134/agronj1936.00021962002800010001x agridat::li.millet.uniformity Ligon, L. L. (1930). Size Plat Number Replications Field Experiments Cotton. Agronomy Journal, 22, 689-699. https://doi.org/10.2134/agronj1930.00021962002200080003x Reviewed. uniformity test, rather ‘cultural’ test ‘varietal’ test. Liji, Kumari (1997). Optimum size plots coconut using multivariate techniques. Thesis, Kerala Agriculture Univ. Reviewed. data. Lizy, M.J. (1986). Uniformity trials colocasia. https://krishikosh.egranth.ac./handle/1/5810113181 Reviewed. data. Lizy, M. J.; K. C. George Jacob Thomas (1988). Optimum Size Shape Plots Colocasia. Agric. Res. J. Kerala, 25, 241-248. http://14.139.185.57:8080/jspui/bitstream/123456789/4103/1/25_2_241-248_0002-1628.pdf Reviewed. data. Lizy, M.J.; George, K.C.; Thomas, M.J. (1988). Optimum size shape plots colocasia (Colocasia esculenta L.) Agricultural Research Journal Kerala 25(2): 241-248 https://eurekamag.com/research/001/901/001901914.php Paper found, Lizy thesis found, data. Loesell, Clarence (1936). Size plot & number replications necessary varietal trials white pea beans. Thesis, Michigan State. https://d.lib.msu.edu/etd/5271 agridat::loesell.bean.uniformity Lohmor, Nishu (2015). Estimation optimum plot size, shape number replications sunflower (Helianthus annuus). Thesis. https://krishikosh.egranth.ac./handle/1/81261 Reviewed. data. Lohmor, Nishu; Mujahid Khan; Kiran Kapoor; Nitin Tanwar (2017). Study Optimum Block Size Shape Uniformity Trial Sunflower (Helianthus annuus). Advances Research, 9, 1-8. 2017. Reviewed. data. Lord, L. (1931). Uniformity Trial Irrigated Broadcast Rice. Journal Agricultural Science, 21(1), 178-188. https://doi.org/10.1017/S0021859600008029 agridat::lord.rice.uniformity Love, Harry (1937). Application Statistical Methods Agricultural Research. Commercial Press, Shanghai. Page 411. https://archive.org/details/.ernet.dli.2015.233346/page/n421 agridat::love.cotton.uniformity Love, H.H. W.T. Craig (1938). Investigations plot technic small grains. Cornell University, Memoir 214. https://catalog.hathitrust.org/Record/011481484 Reviewed. data. Described 3 trials 600 plots. Lorentz, Leandro Homrich; Alexandra Augusti Boligon; Lindolfo Storck; Alessandro Dal’Col Lúcio. (2010). Plot size experimental precision sunflower production. Sci. Agric. (Piracicaba, Braz.), v.67, n.4, p.408-413. Reviewed. data. Love, H. H. (1936). Uniformity Trials Useful?. Agronomy Journal, 28(3), 234. https://10.2134/agronj1936.00021962002800030007x Reviewed. data. Lúcio, . D. C., Nunes, L. F., Rego, F., & Pasini, M. P. (2016). Relations zero-inflated variables trials horticultural crops. Spanish Journal Agricultural Research, 14(2), 17. https://dialnet.unirioja.es/servlet/articulo?codigo=6802883 Reviewed. data. Lúcio, . D. C., & Benz, V. (2016). Accuracy estimates zucchini production related plot size number harvests. Ciência Rural, 47. https://doi.org/10.1590/0103-8478cr20160078 Reviewed. data. Lucyamma, Mathew. (1986). Standardization field plot technique cashew. Diss. Department Statistics, Kerala Agricultural University. https://krishikosh.egranth.ac./handle/1/5810142095 Reviewed. data. Page 34 details. 294 trees, 8 years (combined 4). Lyon, T.L. (1911). experiments estimate errors field plat tests. Proc. Amer. Soc. Agron, 3, 89-114. Table III. https://doi.org/10.2134/agronj1911.00021962000300010016x agridat::lyon.potato.uniformity MacDonald, D. Fielding, W. L. Ruston, D. F. (1939). Experimental methods cotton: . design plots variety trials. Journal Agricultural Science, 29, 35-47. http://dx.doi.org/10.1017/S0021859600051534 Reviewed. data. Two heatmaps fields. Magistad, O. C.; & C. . Farden (1934). Experimental Error Field Experiments Pineapples. Journal American Society Agronomy, 26, 631–643. agridat::magistad.pineapple.uniformity Masood, M Asif Irum Raza Muhammad Yaseen. 2012. Estimation optimum field plot size shape paddy yield trial. Pakistan J. Agric. Res., Vol. 25 . 4, 2012 agridat::masood.rice.uniformity McClelland, Chalmer Kirk (1926). determinations plat variability. Agronomy Journal, 18, 819-823. https://doi.org/10.2134/agronj1926.00021962001800090009x agridat::mcclelland.corn.uniformity McGuire, Judson U. (1954). Uniformity Data European Corn Borer, Pyrausta Nubilalis Hbn., Populations. [Ames, Ia.: s.n.], 1954. https://hdl.handle.net/2027/umn.31951000404095s Reviewed. publication data relating corn borer infestation thousands individual corn plants. used. Meier, V.D. Lessman, K.J. (1971). Estimation Optimum Field Plot Shape Size Testing Yield Crambe abyssinica Hochst. Crop Science, 11: 648-650. https://doi.org/10.2135/cropsci1971.0011183X001100050013x Reviewed. data. Idea: thesis Meier Perdue University. looked online found anything. Mercer, WB Hall, AD, (1911). experimental error field trials Journal Agricultural Science, 4, 107-132. Table 1. https://doi.org/10.1017/S002185960000160X agridat::mercer.mangold.uniformity agridat::mercer.wheat.uniformity Miller, John D., E. James Koch. (1962) “Plot Technique Study Birdsfoot Trefoil”. Agronomy Journal, 54, 95-97. https://acsess.onlinelibrary.wiley.com/doi/abs/10.2134/agronj1962.00021962005400020001x Reviewed. data. Mitscherlich, Alfred Franz Dühring. (1921). Über die Größe der Teilstücke bei Feldversuchen. Die Landwirtschaftlichen Versuchsstationen. Bd. XCVIII. 1921 p. 365-383. https://archive.org/details/dielandwirtschaf9819reun/page/364/mode/2up Reviewed. data given. Used datasets Roemer (1920). Miyaska, Susan C.; Charles E. McCulloch, Graham E. Fogg, James R. Hollyer. Optimum Plot Size Field Trials Taro (Colocasia esculenta). HortScience 48, 435-443. https://doi.org/10.21273/HORTSCI.48.4.435 Reviewed. data. Optimum plot size 18-21 plants (4.9 - 5.7 m^2). Modjeska, Janet aspects spatial analysis uniformity data. Inst. Statistics Mimeo Series 1345. Used data Batchelor & Reid. Modjeska, J. S., & Rawlings, J. O. (1983). Spatial Correlation Analysis Uniformity Data. Biometrics, 39(2), 373. https://doi.org/10.2307/2531010 Used data Batchelor & Reid. Mohammed, Ali Abulgasim. analysis autonormal moels correlation struture applied uniformity data. Institute Statistics Mimeograph Series . 1313. Reviewed. data. Montgomery, E. G. (1912). Variation Yield Methods Arranging Plats Secure Comparative Results. Twenty-Fifth Annual Report Agricultural Experiment Station Nebraska, 164-180. https://books.google.com/books?id=M-5BAQAAMAAJ&pg=RA4-PA164 agridat::montgomery.wheat.uniformity Montgomery, E. G. (1913). Experiments Wheat Breeding: Experimental Error Nursery Variation Nitrogen Yield. U.S. Dept Agriculture, Bureau Plant Industry, Bulletin 269. Figure 10, page 37. https://doi.org/10.5962/bhl.title.43602 agridat::montgomery.wheat.uniformity Moore, John F Darroch, JG. (1956). Field plot technique Blue Lake pole beans, bush beans, carrots, sweet corn, spring fall cauliflower. Washington Agricultural Experiment Stations, Institute Agricultural Sciences, State College Washington. https://babel.hathitrust.org/cgi/pt?id=uiug.30112019919072&view=1up&seq=33&skin=2021 agridat::moore.uniformity Mortensen, M. L. (1911). Die Technik der Feldversuche (Technique Field Experiments). Jahresbericht der Vereinigung für Angewandte Botanik, 9, 177-187. https://www.biodiversitylibrary.org/item/36059#page/573/mode/1up data. Muniya, Sejal ben. (2017). Plot size study mathematical approach. Thesis, Agricultural University Anand. https://krishikosh.egranth.ac./handle/1/5810115216 Reviewed. data. Murray, E. K. S. (1934). value uniformity trial field experimentation rubber. Journal Agricultural Science, 24(2), 177-184. https://doi.org/10.1017/s0021859600006572 Reviewed. used. 2 years 5x5 grid rubber trees. Based data archived Rothamsted, used time. see can get original data. Nagai, Violeta (1978). Tamanho da parcela e numero de repeticoes em experimentos com morangueiro (Plot size number repetitions experiments strawberry). Bragantia, 37, 71-81. Table 2, page 75. https://doi.org/10.1590/S0006-87051978000100009 agridat::nagai.strawberry.uniformity Nagardas, Motaka Ganapatlal (2006). Plot size study uniformity trial data durum wheat Bhal region. https://krishikosh.egranth.ac./handle/1/5810115906 Reviewed. data. Nair, Remesh B.; P. v. Prabhakaran (1983). Optimum size shape plots field experiments cashew. Agric Res J Kerrala, 21, 27-34. Reviewed. data. Nair, B. Gopakumaran Nair, (1984). Optimum plot size field experiments turmeric (Curcuma longa L) Thesis, Department Statistics, College Veterinary & Animal Sciences, Mannuthy. https://krishikosh.egranth.ac./handle/1/5810147397 agridat::nair.turmeric.uniformity Narain, R.; . Singh, (1940). note shape blocks field experiments. Ind. J. Agr. Sci., 10, 844-853. Page 845. https://archive.org/stream/.ernet.dli.2015.271745 agridat::narain.sorghum.uniformity Narayanan, R (1974). Estimation optimum plot size clone trials hevea. Journal Rubber Research Institute Malaysia 24(1): 54-67. https://rios.lgm.gov./cms/fedDigiJournalDetail.jsp?searchText=&selTab=digiCon&id=&type=JRR&issueYear=1974 Reviewed. data. Narayanbhai, P.J. (2005). Plot size study uniformity trial data French bean. https://krishikosh.egranth.ac./handle/1/5810115923 Reviewed. data. Neyman, J., & Iwaszkiewicz, K. (1935). Statistical problems agricultural experimentation. Supplement Journal Royal Statistical Society, 2(2), 107-180. Reviewed. Used datasets papers. Nokoe, Sagary & Rodomiro Ortiz (1998). Optimum Plot Size Banana Trials. HortScience 33, 130-132. https://hdl.handle.net/10568/95942 Reviewed. data. Nonnecke, Ib Libner. (1958). Yield variability sweet corn canning peas affected plot size shape. Thesis Oregon State College. https://hdl.handle.net/1957/23367 agridat::nonnecke.peas.uniformity agridat::nonnecke.sweetcorn.uniformity Nonnecke, . L. K. W. Smillie (1964). Precision field experiments vegetable crops influenced plot size shape III Potatoes. Canadian Jour Plant Science, 44, 57-65. https://doi.org/10.4141/cjps64-011 Reviewed. data. Obsi, Dechassa (2008). Application Spatial Modeling Study Soil Fertility Pattern. MS Thesis, Addis Ababa University. Page 122-125. http://etd.aau.edu.et/handle/123456789/3221 agridat::obsi.potato.uniformity Odland, TE Garber, RJ. (1928). Size Plat Number Replications Field Experiments Soybeans. Agronomy Journal, 20, 93–108. https://doi.org/10.2134/agronj1928.00021962002000020002x agridat::odland.soybean.uniformity Omanakuttan, Chithra (2015). Plot size study uniformity trial data mustard (Brassica juncea L.). M.S. Thesis, Sardarkrushinagar Dantiwada Agricultural University. https://krishikosh.egranth.ac./handle/1/5810116905 Reviewed. data. Onate, Burton. 1965. Size Shape Plot Rice Replicated Field Experiments. Philippine Statistician. Reviewed. data. Results indicate plot dimensions 4 rows 12 hills (3-5 sq m) relatively efficient bigger plots. CV observed 10 percent, implies 5 replicates needed detect mean difference 10 percent. Oscar Morgan, J. Experiments Determine Uniformity Certain Plats Field Tests. Agronomy Journal, 1, 58-67. https://doi.org/10.2134/agronj1907-1909.00021962000100010015x Reviewed. relative yields 1x63 plots wheat followed fodder corn season. included agridat experiment 1 plot wide. Oliveira, Sérgio José Ribeiro de. Dependência entre o tamanho da unidade básica e estimativas das dimensões da parcela experimental de batata. http://repositorio.ufsm.br/handle/1/3234 Diss. Universidade Federal de Santa Maria, 2005. Reviewed. data. Paardekooper, E.G. (1966). Results four uniformity trials determine influence plot size shape efficiency field experiments rubber. Res. -chs Rubb. Res. Inst. Malaya, Docum. 56. Reviewed. data. Paez Bogarin, Gilberto (1962). Estudios sobre tamano y forma de parcela para ensayos en cafe. Instituto Interamericano de Ciencias Agricolas de la O.E.. Centro Tropical de Investigacion y Ensenanza para Graduados. Costa Rica. https://www.google.com/books/edition/Estudio_Sobre_Tamano_Y_Forma_de_Parcela/7ScOAQAAIAAJ agridat::paez.coffee.uniformity Pal, Satyabrata; Ayanendranath Basu; Goutam Mandal; Asim Kumar Chakraborty; Arunava Ghosh (2016). State Art Review Methods Determination Robust Optimum Plot Size. International Journal Science Technology, 6. Reviewed. data. Pal, Satyabrata; Satyananda Basak; Subhabaha Pal; Sanpei Kageyama (2007). determination optimum size shape plots field trials. Biometrical Letters, 44, 23-31. Reviewed. data. Pal, Satyabrata; Goutam Mandal; Kajal Dihidar. (2015). Determination robust optimum plot size shape – model-based approach. Biometrical Letters, 52, 13-22. https://doi.org/10.1515/bile-2015-0002 Reviewed. data. Pan, Chien-liang (1935). Uniformity Trials Rice. Agronomy Journal, 27(4), 279–285. https://doi.org/10.2134/agronj1935.00021962002700040007x data. Panse, V. G. (1941). Studies technique field experiments. V. Size shape blocks arrangements plots cotton trials. Indian Journal Agricultural Science, 11, 850-867 https://archive.org/details/.ernet.dli.2015.271747/page/n955 agridat::panse.cotton.uniformity Panse & Sukhatme (1954). Statistical Methods Agricultural Workers. ICAR, New Delhi. Ch 7, p 141. https://archive.org/details/dli.scoerat.949statisticalmethodsforagriculturalworkers/page/138/mode/2up data Panse (1941). agridat::panse.cotton.uniformity Parker, E. R.; & L. D. Batchelor. (1932). Variation Yields Fruit Trees Relation Planning Future Experiments. Hilgardia, 7(2), 81-161. Tables 3-9. https://doi.org/10.3733/hilg.v07n02p081 agridat::parker.orange.uniformity Patel, J.B. (2004). Estimation Optimum Plot Size Field Experiment Green Gram (Phaseolus rediatus L.) https://krishikosh.egranth.ac./handle/1/5810072537 Reviewed. data. Patel, Natverlal M. (1967). Plot technique Bajri-Pennisetum typhoides. https://krishikosh.egranth.ac./handle/1/5810045227 Reviewed. data. Patel, Natverlal M. (1981). Plot size study bidi tobacco (Nicotiana tabacum L.). Thesis. https://krishikosh.egranth.ac./handle/1/5810045267 Reviewed. data. Patil, N.M. (1995). Optimum plot size shape, block size shape relative efficiency designs field experiments cowpea (Vigna unguiculata). https://krishikosh.egranth.ac./handle/1/5810119241 Reviewed. data. Patil, S. L. Narayana Reddy P. Bhaskra Rao (2010). Experimental Plot Size Shape Based Data Uniformity Trial Dryland Bengalgram (Cicer arietinum L.) Winter Season Vertisols Semi–Arid Tropics South India. Indian J.Dryland Agric. Res. & Dev. 2010 25(1) : 102-105. https://www.indianjournals.com/ijor.aspx?target=ijor:ijdard&volume=25&issue=1&article=015 Reviewed. data. Pearce, S. C.; & Jean M. S. Thom (1951). Study Plot-Size Nigerian Estate Cacao. Journal Horticultural Science, 26:4, 261-267. https://doi.org/10.1080/00221589.1951.11513739 Reviewed. data. Peiris, T. S. G.; R. O. Thattil (1997). Alternative methods determine plot sizes three crops: case study coconut data. COCOS (1997), 12, 44-53 http://doi.org/10.4038/cocos.v12i0.2165 Reviewed. data. References CRI (1985). Peiris, T. U. S. M. . B. Ranatunga (2005). Use Information Positional Variation Increasing Precision Field Experiments Tea. Sri Lanka Journ Tea Science 70, 10-17. http://dl.nsf.gov.lk/handle/1/19649 Reviewed. data. Pimentel, Gomes; Couto, H.T.Z. (1985). O Tamanho Ótimo de Parcela Experimental Para Ensaios com Eucaliptos (Optimum Experimental Plot Size Essays Eucalipt). Revista IPEF, Pirarcicaba, 31, 75. https://doi.org/10.1590/S0100-67622003000500009 Reviewed. data. Plaisted, Robert LeRoy (1954). Field plot techniques estimating onion yields. Master’s Thesis, Iowa State University. https://doi.org/10.31274/rtd-20200617-42 Reviewed. data. Pointer, John Pate E. James Koch (1961). Estimates Optimum Plot Size Uniformity Data Maryland Tobacco. Tobacco Science, 5-27, p. 112-117. Reviewed. data. Polson, David (1964). Estimation Optimum Size, Shape, Replicate Number Safflower Plots Yield Trials. Utah State University, Graduate Theses Dissertations, 2979. Table 6. https://digitalcommons.usu.edu/etd/2979/ agridat::polson.safflower.uniformity Poultney, R., Riley, J., & Webster, R. (1997). Optimizing plot size shape field experiments terraces. Experimental Agriculture, 33(01), 51–64. doi:10.1017/s0014479797000161 Reviewed. data. Heatmaps 5 terraces. Prabhakaran, P.V. (1974). Optimum plot size field experiments tapioca. Agricultural Research Journal Kerala, 12(1), 19-23. https://krishikosh.egranth.ac./handle/1/5810114240 Reviewed. data. Prajapati Rameshbhai, . (2005). Optimum size shape plot field experiments potato. Thesis. https://krishikosh.egranth.ac./handle/1/5810115905 Reviewed. data. Prabhakaran, P.V. (1978). Optimum plot size field trials banana. Agricultural Research Journal Kerala, 16(1), 33-38. https://krishikosh.egranth.ac./handle/1/5810115813 Reviewed. data. Rakhi, T. Arya V. Chandran, Vijayaraghava Kumar Brigit Joseph. Estimation Optimum Plot Size Shape Branching Variety Cassava (Manihot esculenta Crantz) Using Statistical Methods. Journal Root Crops, 2020, Vol. 46 . 1, pp. 58-62 https://journal.isrc./index.php/jrc/article/view/575/408 Reviewed. data. Ramani, C.V. (1995). Plot technique Lucern. https://krishikosh.egranth.ac./handle/1/5810046435 Reviewed. data. Rampton H. H. Roger G. Petersen. Relative efficiency plot sizes numbers replications indicated yields orchardgrass seed uniformity test. https://doi.org/10.2134/agronj1962.00021962005400030019x Reviewed. data. Reddy, M. N., C. K. Ramanatha Chetty (1982). Effect Plot Shape Variability Smith’s Variance Law. Experimental Agriculture, 18, 333-338. https://doi.org/10.1017/S0014479700000752 Reviewed. data. Reddy, M. Narayana; C. K. Ramanatha Chetty. (1985). Experimental plot size shape based data uniformity trial dryland pigeonpea. Indian J. Agric. Sci. Vol 55, Num 8, pp 538-543 found. Reddy, S.B.S. (1992). Uniformity trial groundnut. https://krishikosh.egranth.ac./handle/1/5810000021 data uniformity trial? Small dataset page 96, 20 plots 5 plants/plot. Branches/plant, leaves/plant, height plant. Reji. (1995). Optimum plot size intercropping experiments. Thesis, Kerala Agricultural University. Reynolds, D.T. D.T. Killough J.T. Vantine (1934). Size, shape, replication plats field experiments cotton. Agronomy Journal, 26, 725-734. https://doi.org/10.2134/agronj1934.00021962002600090003x Reviewed. data. Richter, C., & Kroschewski, B. (2012). Geostatistical Models Agricultural Field Experiments: Investigations Based Uniformity Trials. Agronomy Journal, 104(1), 91–105. https://doi.org/10.2134/agronj2011.0100 Reviewed. data. Trials conducted 1954-1958. Robinson, H.F.; J..Rigney P.H.Harvey (1948). Investigations Peanut Plot Technique Peanuts. Univ California Tech. Bul. 86. agridat::robinson.peanut.uniformity Roemer, T. (1920). Der Feldversuch. Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302. https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ agridat::roemer.sugarbeet.uniformity Rossettii, .G.; Pimentel Gomes, F. (1983). Determinação Tamanho Otimo de Parcelas em Ensaios Agricolas (Determination Optimum Plot Size Agricultural Essays). Pesq. agropec. bras., Brasilia, 18(5), 477. https://repositorio.usp.br/item/000724650 Reviewed. data. Spanish. Rossetti, .G.; Gomes, F.P. (1987). method determination optimum plot size experiments rubber trees (Hevea). J Nat Rubb Res (1987) 2(3):135-141 http://agris.upm.edu.:8080/dspace/handle/0/15652 Reviewed. data. Rothamsted Experimental Station (1927). Report 1925-1926 Supplement Guide Experimental Plots. Lawes Agricultural Trust, p. 154-155. http://www.era.rothamsted.ac.uk/eradoc/book/84 agridat::sawyer.wheat.uniformity Sagisi, Fancisca D.; Mariano B. de Ramos. Field Plot Sampling Techniques Virginia Tobacco. data uniformity trial part report. Salem, Manal M. Somaia . Barakat (2004). Estimation optimum plot size, number replications number sampling units Faba bean yield trails. J. Agric. Sci. Mansoura Univ., 29, 4375-4390. Reviewed. data. Samita, S.; R. O. Thattil Katulanda; N. E. M. Jayasekara. (1991). Optimum plot size rubber (Hevea brasiliensis). Tropical Agricultural Research, 3, 348-354. Reviewed. data. Sanders, H. G. (1930). note value uniformity trials subsequent experiments. Journal Agricultural Science, 20(01), 63. https://doi.org/10.1017/s0021859600088626  Reviewed. data. Used data Aarslev, Denmark. Sands, Daniel E. (1954). Determination Optimum Plot Size Estimating Mean Number Bolls. USDA. https://www.nass.usda.gov/Education_and_Outreach/Reports,_Presentations_and_Conferences/Yield_Reports/%20Determination%20of%20Optimum%20Plot%20Size%20for%20Estimating%20Mean%20Number%20of%20Bolls.pdf Reviewed. data. Sapěhin, . . (1927). Beiträge zur Methodik des Feldversuches. Die Landwirtschaflichen Versuchsstationen, 105, 243-259. https://www.google.com/books/edition/Die_Landwirthschaftlichen_Versuchs_Stati/cLZGAAAAYAAJ?hl=en&pg=PA243 agridat::jurowski.wheat.uniformity Sari, Bruno Giacomini; Alessandro Dal’Col Lucio. (2018). Uniformity trials size estimating cherry tomato plot size. Revista Ciência Agronômica, v. 49, n. 4, p. 653-662, -dez, 2018 http://ccarevista.ufc.br/seer/index.php/ccarevista/article/view/4462 Reviewed. data. Sayer, Wynne; M. Vaidyanathan S. Subrammonia Iyer (1936). Ideal size shape sugar-cane experimental plots based upon tonnage experiments Co 205 Co 213 conducted Pusa. Indian J. Agric. Sci., 1936, 6, 684-714. Appendex, page 712. https://archive.org/details/.ernet.dli.2015.271737 agridat::sayer.sugarcane.uniformity Sayer, Wynne; Krishna Iyer. (1936). factors influence error field experiments special reference sugar cane. Indian J. Agric. Sci., 1936, 6, 917-929. Appendix, page 927. https://archive.org/details/.ernet.dli.2015.271737 agridat::sayer.sugarcane.uniformity Schmildt, Edilson Romais; Adriel Lima Nascimento; Alan de Lima Nascimento; et al. Optimum plot size experiments papaya genotypes field. African Journal Agricultural Research, 13, 360-365. https://doi.org/10.5897/AJAR2017.12951 Reviewed. data. Optimum plot size four plants plot, using four replications. Schwertner, Diogo Vanderlei Alessandro Dal’Col Lúcio, Alberto Cargnelutti Filho. (2015). Uniformity trial size estimates plot size restrict areas. Revista Ciência Agronômica, v. 46, n. 3, p. 597-606. Reviewed. data. Schwertner, Diogo Vanderlei ; Alessandro Dal’Col Lúcio, Alberto Cargnelutti Filho. (2015). Size uniformity trials estimating optimum plot size vegetables. Horticultura Brasileira 33(3):388-393. http://dx.doi.org/10.1590/S0102-053620150000300019 Reviewed. data. Shaboon, Sh. Fateh, H. Fares, W. (2013). Utlization uniformity trials estimate optimum plot size shape number replications maize yield trials. Egyptian Journal Agricultural Sciences, 64, 379-388. http://dx.doi.org/10.21608/ejarc.2013.214342. Reviewed. data. Shafi, Sameera (2007). Aspects Plot Techniques Field Experiments Tomato (Lycopersicon esculentum mill.) Soils Kashmir. Thesis. Univ. Ag. Sciences & Technology Kashmir. Table 2.2.1. https://krishikosh.egranth.ac./handle/1/5810083035 agridat::shafi.tomato.uniformity Shafi, Sameera; S..Mir, Nageena Nazir, Anjum Rashid. (2010). Optimum plot size tomato using S-PLUS R-software’s soils Kashmir. Asian J. Soil Sci., 4, 311-314. https://www.researchjournal.co./upload/assignments/4_311-314.pdf agridat::shafi.tomato.uniformity Shah, Syed Asghar Ali; Murtaza Khan Alamgir (2016). Size, Shape . Replication Plot Relation Field Experiment Wheat Variety PIRSABAK-2004. Food Science Quality Management, 50. Reviewed. data. Sharma, Anju (1992). Determination optimum plot size estimation tomato (Lycopersicon esculentum Mill.) yield Saproon Valley Solan District (H.P.). https://krishikosh.egranth.ac./handle/1/5810067799 Reviewed. data. Sharpe, R. H., G. H. Blackmon, 1950 Study Plot Size Experimental Design Pecan Yield Data. . Soc. Hort. Sci. Pro. 56:236-241. Reviewed. data. Sheela, M (1987). Optimum size plots cocoa (Theobroma cacoa L.) multivariate case. Department Statistics, College Veterinary Animal Sciences, Mannuthy https://krishikosh.egranth.ac./handle/1/5810142527 Reviewed. data. Shitap, Shri M.S. (2011). Plot technique Brinjal (Solanum melongena L.) https://krishikosh.egranth.ac./handle/1/5810010600 Reviewed. data. table contents suggests data appears appendix, pages blank. Shitap, M. S. V. B. Darji (2014). optimum plot size shape field experimentation brinjal (Solanum melongena L.) middle Gujarat condition. International Research Journal Agricultural Economics Statistics, 5, 158-152. https://doi.org/10.15740//IRJAES/5.2/148-152 Reviewed. data. Shukla, . K., Subhash K. Yadav, Govind Ch. Misra (2013). linear model uniformity trial experiments. Statistics Transition, 14, 161-170. http://cejsh.icm.edu.pl/cejsh/element/bwmeta1.element.desklight-3d53acd5-91b2-41b1-a908-01a58b0fce65 Reviewed. data. (Appeared use data Haque, summary statistics, raw data). Shukla, Alok Kumar (2011). contributions estimation asymptotic regression statistical models. Dissertation, Chhatrapati Sahuji Maharaj University. http://hdl.handle.net/10603/228329 Reviewed. data. Siao, Fu. field plot technic study cotton. Found : Harry H. Love papers, 1907-1964. Box 3, folder 34, Cotton - Plot Technic Study 1930-1932. https://rmc.library.cornell.edu/EAD/htmldocs/RMA00890.html experiments Siao (1935). agridat::siao.cotton.uniformity Siao, Fu (1935). Uniformity trials cotton. J. Amer. Soc. Agron., 27, 974-979. https://doi.org/10.2134/agronj1935.00021962002700120004x Reviewed. data. Data found personal papers Harry Love. Sills, G. R., & Nienhuis, J. (1993). Field Plot Technique Affects Snap Bean Yield Evaluation. Journal American Society Horticultural Science, 118(5), 672-674. https://doi.org/10.21273/JASHS.118.5.672 Reviewed. data. Silva, Mauricio dos Santos da, et al. (2019) “Optimal size experimental plots papaya trees using modified maximum curvature method.” Ciência Rural 49 (2019). https://www.scielo.br/j/cr//CYZsbJzSD6SWpYB9X3WscqF/?lang=en Reviewed. data. Smith, Francis L. (1958). Effects plot size, plot shape, number replications efficacy bean yield trials. Hilgardia, 28, 43-63. https://doi.org/10.3733/hilg.v28n02p043 agridat::smith.beans.uniformity Smith, H. Fairfield (1938). empirical law describing heterogeneity yields agricultural crops. Journal Agricultural Science, volume 28, Issue 1, January 1938, pp. 1 - 23. https://doi.org/10.1017/S0021859600050516 agridat::smith.wheat.uniformity Smith, Louis H. 1910. Plot arrangement variety experiments corn. Agronomy Journal, 1, 84–89. Table 1. https://books.google.com/books?id=mQT0AAAAMAAJ&pg=PA84 agridat::smith.corn.uniformity Sokhal, Urmil (1982). College Efficiency Designs Bajra Relation Shape size Plot Block. https://krishikosh.egranth.ac./handle/1/5810055172 Reviewed. data. Soplin, H., H. D. Gross, J. O. Rawlings. (1975). Optimum Size Sampling Unit Estimate Coastal Bermudagrass Yield”. Agronomy Journal 67.4 (1975): 533-537. https://doi.org/10.2134/agronj1975.00021962006700040020x Reviewed. data. Stadler, Lewis John. (1921). Experiments field plot technic preliminary determination comparative yields small grains. University Missouri. https://hdl.handle.net/2027/umn.319510008017444 Reviewed. data. Uniformity trial discussed page 43. Stadler, L. J. (1926). Experimental Error Field Plot Tests. Proceedings International Congress Plant Sciences, Vol 1, 107-127. https://babel.hathitrust.org/cgi/pt?id=mdp.39015069524372&seq=197 Reviewed. original data. Used datasets similar Roemer (1920). Page 110 summarizes blank experiments 100 plots. Stephens, Joseph C. (1928). Experimental methods probable error field experiments sorghum. Journal Agricultural Research, 37, 629–646. https://naldc.nal.usda.gov/catalog/IND43967516 agridat::stephens.sorghum.uniformity Stickler, F. C. (1960). Estimates Optimum Plot Size Grain Sorghum Uniformity Trial Data. Technical bulletin, Kansas Agricultural Experiment Station. Page 17-20. https://babel.hathitrust.org/cgi/pt?id=uiug.30112019584322&view=1up&seq=21 agridat::stickler.sorghum.uniformity Stockberger, W. W. (1912). Study Individual Performance Hops. Journal Heredity, 1, 452-457. https://doi.org/10.1093/jhered/os-8.1.452 Reviewed. data. Stockem, J.E., Korontzis, G., Wilson, S.E. et al. (2021) Optimal Plot Dimensions Performance Testing Hybrid Potato Field. Potato Research, 65, 417–434. https://doi.org/10.1007/s11540-021-09526-9 Reviewed. data. Storck, Lindolfo (2010). Partial collection data potato yield experimental planning. Field Crops Research, 121, 286-290. https://doi.org/10.1016/j.fcr.2010.12.018. Reviewed. data. Storck, Lindolfo; Sidinei Lopes; Alessandro Dal’Col Lúcio; Alberto ​Cargnelutti Filho (2011). Optimum plot size number replications related selective precision. Ciência Rural 41(3):390-396. https://doi.org/10.1590/S0103-84782011000300005 https://www.researchgate.net/publication/270761907_Optimum_plot_size_and_number_of_replications_related_to_selective_precision data Strickland, . G. (1932). vine uniformity trial. Journal Agriculture, Victoria, 30, 584-593. Strickland, . G. (1935). Error horticultural experiments. Journal Agriculture, Victoria, 33, 408-416. agridat::strickland.apple.uniformity agridat::strickland.grape.uniformity agridat::strickland.peach.uniformity agridat::strickland.tomato.uniformity Strydom, G. J. (1966). Studies planning field experiments vegetable crops. S. Afr. J. Agric. Science 9, 183-194. https://hdl.handle.net/10520/AJA05858860_582 Reviewed. data. Summerby, R. (1923). Replication relation accuracy comparative crop tests. J. Soc Agron, 15. https://www.google.com/books/edition/Proceedings_of_the_American_Society_of_A/MWU4AQAAMAAJ Also: https://doi.org/10.2134/agronj1923.00021962001500050004x Reviewed. data. Data sent Rothamsted 1938. Two areas land, 100 links 505 links. One area Alaska Oats. Another area Huron wheat. fixme check can find Rothamsted papers. Summerby, R. (1925). Study Sizes Plats, Number Replications, Frequency Methods Using Check Plots Relation Accuracy Field Experiments. Jour. Amer. Soc, Agron. 17: 140-149. Reviewed. Data uniform. data-unused/summerby.oat.uniformity Summerby, R. (1934). value preliminary uniformity trials increasing precision field experiments. Macdonald College. https://books.google.com/books?id=6zlMAAAAYAAJ&pg=RA14-PA47 Reviewed. data 5x35 1x35 grid layouts. agridat::summerby.multi.uniformity. Swallow, William H.; Todd C. Wehner (1986). Optimum Plot Size Determination Application Cucumber Yield Trials. Euphytica, 35, 421-432. https://doi.org/10.1007/BF00021850 Reviewed. data. multiple-harvest yield trials, optimum plot sizes estimated 6.4 10.3 m^2. Swanson, .F. (1930). Variability Grain Sorghum Yields Influenced Size, Shape, Number Plats. Agron. J., 22: 833-838. https://doi.org/10.2134/agronj1930.00021962002200100002x Reviewed. data. Swearingin, M.L. Holt, D.. (1976). Using “Blank” trial teaching tool. Journal Agronomic Education, 5: 3-8. https://doi.org/10.2134/jae.1976.0003 Data 9 trials. trial RCBD 4 ‘varieties’ 4 reps. clear layout rows columns randomized. Taha, R.S. M.M. Shafik (2000). Relative precision incomplete block designs soybean uniformity trials optimum sample size. J. Agric. Sci. Mansoura Univ, 25, 5601-5610. Reviewed. data. Tartaglia, FdL, Lúcio, , Diel, MI, et al.  Experimental Plan Tests Pea. Agronomy Journal. 2021; 113: 1394–1406. https://doi.org/10.1002/agj2.20575 Reviewed. data. Taylor, F.W. (1907-1909). size experimental plot field crops. Proceedings annual Society agronomy 1, 56-58. https://acsess.onlinelibrary.wiley.com/doi/10.2134/agronj1907-1909.00021962000100010014x Reviewed. data. Taylor, Howard Lewis (1951). effect plot shape experimental error. Master’s Thesis, Iowa State University. Reviewed. digital copy available. data given. Used data corn uniformity trial, oats uniformity, data Fairfield Smith. Smaller experimental errors found long narrow plots. Tedin, Olof (1931). Influence Systematic Plot Arrangement upon Estimate Error field Experiments. J. Agric. Science, 21, 191-208. https://doi.org/10.1017/S0021859600008613 Reviewed. data. Uses uniformity trials papers. Thomas, H.L. Abou-El-Fittouh, H.. (1968) Optimum Plot Size Number Replications Estimating Forage Yield Moisture Percentage. Agron. J., 60: 549-550. https://doi.org/10.2134/agronj1968.00021962006000050031x Reviewed. data. Thompson, Ross C. (1934). Size, Shape, Orientation Plots Number Replications Required Sweetpotato Field-Plot Experiments. J. Agric. Rsch., 5, 379-399. https://naldc.nal.usda.gov/catalog/IND43968506 Reviewed. data. Interesting paper experiment conducted 4 plots year/loc combinations. Toebe, Marcos, et al. (2020). Plot size number replications ryegrass experiments. Ciência Rural 50.1. https://doi.org/10.1590/0103-8478cr20190195 Reviewed. data. Toebe, Marcos, et. al. (2022). Plot size number replicates ryegrass experiments sowed rows. Pesquisa Agropecuária Brasileira, v.57, e02976, 2022. DOI: https://doi.org/10.1590/S1678-3921.pab2022.v57.02976. Reviewed. data. Torrie, J.H., Schmidt, D.R. Tenpas, G.H. (1963). Estimates Optimum Plot Size Shape Replicate Number Forage Yield Alfalfa-Bromegrass Mixtures. Agron. Journal, 55: 258-260. https://doi.org/10.2134/agronj1963.00021962005500030015x Tulaikow, N. (1913) Resultate einer mathematischen Bearbeitung von Ernteergebnissen. Russian Journal fur Exp Landw., 14, 88-113. Russian German summary. Two uniformity trials winter summer wheat. agridat::tulaikow.wheat.uniformity Vagholkar, B. P. ; Apte, V. N. ; Iyer, S. S. (1940). study plot size shape technique field experiments sugarcane. Indian Journal Agricultural Science 1940 Vol.10 pp.388-403 https://archive.org/details/.ernet.dli.2015.25316/page/n437/mode/2up Reviewed. data. Vallejo, R.L. & H. . Mendoza (1988). Determination optimum plot size adequate number replications evaluate potato seedling populations. VIIth Symposium International Society Tropical Root Crops, Gosier (Guadeloupe), 1-6 July 1985, Ed. INRA, Paris, 1988. http://www.istrc.org/images/Documents/Symposiums/Seventh/7th_symposium_proceedings_0081.pdf Reviewed. data. Vallejo, Roger L.; VHumberto . Mendoza. (1992). Plot Technique Studies Sweetpotato Yield Trials. J. AMER. Soc. HORT. SCI. 117(3):508-511. https://doi.org/10.21273/JASHS.117.3.508 Reviewed. data. Vargas-Rojas, Jorge Claudio. (2020). Size shape experimental unit yield trials Brachiaria , hybrid CIAT 3608. https://www.semanticscholar.org/paper/Size--shape---experimental-unit--yield--Vargas-Rojas/e9964eca6ac42471aa44bc45e84bc376b02daf09 Vishnaadevi, S.; K. Prabakaran, E. Subramanian, P. Arunachalam. (2019). Determination fertility gradient direction optimum plot shape paddy crop Madurai District. Green Farming, 10, 155-159. https://www.researchgate.net/publication/333892867 agridat::vishnaadevi.rice.uniformity Warren, J.. Mendez, . (1981). Block Size Orientation, Allowance Positional Effects, Field Experiments. Experimental Agriculture, 17, 17 - 24. https://doi.org/10.1017/S0014479700011182 Reviewed. Used dozen existing datasets. Wassom R.R. Kalton. (1953). Estimations Optimum Plot Size Using Data Bromegrass Uniformity Trials. Agricultural Experiment Station, Iowa State College, Bulletin 396, page 314-319. https://lib.dr.iastate.edu/ag_researchbulletins/32/ https://babel.hathitrust.org/cgi/pt?id=uiug.30112019570701&view=1up&seq=26&skin=2021 agridat::wassom.brome.uniformity Webster, C. 1939. note uniformity trial oil palms. Tropical Agriculture, 16, 15-19. data according Mendez. Westover, Kyle C. (1924). influence plot size replication experimental error field trials potatoes. Agricultural Experiment Station, West Virginia University, . 189. https://babel.hathitrust.org/cgi/pt?id=uiug.30112019921359&view=1up&seq=1 https://www.google.com/books/edition/The_Influence_of_Plot_Size_and_Replicati/Px6K44dYd1QC Reviewed. data. Wiebe, G.. 1935. Variation Correlation Grain Yield among 1,500 Wheat Nursery Plots. Journal Agricultural Research, 50, 331-357. https://naldc.nal.usda.gov/download/IND43968632/PDF agridat::wiebe.wheat.uniformity Wiedemann, Alfred Max. 1962. Estimation Optimum Plot Size Shape Use Safflower Yield Trails. Table 5. Graduate Theses Dissertations. Paper 3600. Table 5. https://digitalcommons.usu.edu/etd/3600/ agridat::wiedemann.safflower.uniformity Wiedemann, .M. Leininger, L.N. (1963), Estimation Optimum Plot Size Shape Safflower Yield Trials. Agron. J., 55: 222-225. https://doi.org/10.2134/agronj1963.00021962005500030004x Reviewed. See Wiedemann thesis data. agridat::wiedemann.safflower.uniformity Williams, ER Luckett, DJ. (1988). use uniformity data design analysis cotton barley variety trials. Australian Journal Agricultural Research, 39, 339-350. https://doi.org/10.1071/AR9880339 agridat::williams.barley.uniformity agridat::williams.cotton.uniformity Wilson, C. E. Study plots laid field II view obtaining plot-fertility data use future experiments plots, season 1940-41. Dissertation: University West Indies. Page 36-39. https://uwispace.sta.uwi.edu/dspace/handle/2139/43658 See also dissertation Bradley. agridat::bardley.multi.uniformity Wilson, Wendell W. (1970). Texas Vegetable Remote Sensing Study, 1969 Determination Optimum Plot Size Shape Estimation Carrot Yield. Research Development Branch Standards Research Division Statistical Reporting Service. https://www.nass.usda.gov/Education_and_Outreach/Reports,_Presentations_and_Conferences/Yield_Reports/Texas%20Vegetable%20Remote%20Sensing%20Study%201969.pdf data found. Wood, T. B. F. J. M. Stratton. (1910). interpretation experimental results. J. Agric Sci 3, 417-440. Reviewed. data. Several plots distribution data. Wood, Ronald . (1972). Optimum Plot size winter wheat. Research & Development Branch, Standards Research Division Statistical Reporting Service. https://naldc.nal.usda.gov/catalog/27961 Reviewed. data. Wyatt, F. . (1927). Variation plot yields due soil heterogeneity. Scientific Agriculture, 7, 248-256. Table 1. https://doi.org/10.4141/sa-1927-0020 agridat::wyatt.multi.uniformity Yadav, Raj Pal. 1991. Spatial Correlation Analysis Uniformity Trial Data. College Basic Sciences Humanities Chaudhary Charan Singh Haryana Agricultural University Hisar. https://krishikosh.egranth.ac./handle/1/5810076755 Reviewed. data. Zandonadi, Cecília Uliana Viçosi, David Brunelli Fornazier, Maurício Lorenção Botacim, Luciana Aparecida Sousa, Douglas Gonzaga de Martinuzzo, Marx Bussular Alixandre, Fabiano Tristão Favarato, Luiz Fernando Krohling, Cesar Abel Guarçoni, Rogério Carvalho Alixandre, Ricardo Dias Fornazier, Maurício José (2022). Determining minimum size experimental plot evaluating field parameters Arabica coffee Research, Society Development, 11, 1-9. http://dx.doi.org/10.33448/rsd-v11i6.29384 Reviewed. data. Zhang, R . W. Warrick, D. E. Myers (1994). Heterogeneity, plot shape effect optimum plot size. Geoderma, 62, 183-197. https://doi.org/10.1016/0016-7061(94)90035-3 Reviewed. data. Oddly, appear use data Kuehl & Kittock, data paper. Zuber (1942). Relative Efficiency Incomplete Block Designs Using Corn Uniformity Trial Data. Agron Journal, 34, 30-47. https://doi.org/10.2134/agronj1942.00021962003400010004x Reviewed. Limited data, 3 reps 4x5. Zuhlke, Thomas . Gritton, E.T. (1969). Optimum Plot Size Shape Estimates Pea Yield Trials. Agron. J., 61: 905-908. https://doi.org/10.2134/agronj1969.00021962006100060023x Reviewed. data. paper based thesis W Wisconsin. Zuhlke, Thomas . Gritton, E.T. (1970). Relative Precision Different Experimental Designs Number Replications Pea Yield Trials. Agron J., 62, 61-64. https://doi.org/10.2134/agronj1970.00021962006200010020x Reviewed. data.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Roemer Note: Neyman (1935) says, “used data uniformity trials published T. Roemer (”Der Feldversuch, Berlin, 1920), suitable purpose, many rows columns. Cochran says Roemer: Sugarbeet: 96 plots 1916 1918 - table 1 & 3 Sugarbeet: 416 plots - table 4 Millet 105 plots (also Lehman) - table 13 Oats: 240 plots 8x30 - table 10 Ragi: 34 plots <—- fixme Timothy: 240 plots (also Holtsmark) - table 11 Summer wheat: 16x15=240 plots. Tulaikow Russian Journ Exp Agric , 14. (1913) - table 9 Winter wheat: 10x25=230 plots Tulaikow Russian Journ Exp Agric , 14. (1913) - table 8 Roemer (1920). Der Feldversuch. Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302. https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ Page34. P 37 mean. | Tab | Orig qm | Mu | Wt | unit | note | |—–|———|——|—-|————-|————————————————————————-| | 1 | 6.8 | 21.7 | kg | | agridat::roemer.sugarbeet.uniformity (1916) | | 2 | 6.8 | | kg | | 1917 2x48=96 plots | | 3 | 6.8 | 23.5 | kg | | agridat::roemer.sugarbeet.uniformity (1918) | | 4 | 136.5 | 617 | pf | 1.33 x 22.5 | agridat::haritonenko.sugarbeet.uniformity | | 5 | 20.2 | 329 | lb | 1/10 acre | agridat::mercer.mangold.uniformity | | 6 | 8.1 | 395 | lb | 1/10 acre | agridat::mercer.wheat.uniformity | | 7 | 2.8 | 681 | g | | agridat::montgomery.wheat.uniformity 1909, 14x16 | | 8 | 4.6 | 700 | g | qm | agridat::tulaikow.wheat.uniformity (winter) | | 9 | 4.6 | 532 | g | qm | agridat::tulaikow.wheat.uniformity (summer) | | 10 | 4.6 | 203 | kg | qm | agridat::jegorow.oats.uniformity | | 11 | 6.3 | 17.8 | kg | 25 qm | agridat::holtsmark.timothy.uniformity (orig 5m x 5m) | | 12 | 404.7 | 286 | lb | 20.2 qm | todo 17x2 4 years Lehmann rice | | 13 | 404.7 | 167 | lb | 20.2 qm | agridat::lehmann.millet.uniformity (20 rows instead 22) | Roemer (1925) Der Feldversuch. Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302. https://www.google.com/books/edition/Arbeiten/6LJGAAAAYAAJ","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-1","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Roemer (1920). Note, based note Larsen (240 plot * 25 sq m = 6000 sq m / 60 = 100 sq m per “” appears “” “= 100m^2”) Page 27 1-3. Eigene Versuche mit Zuckerrüben, ausgeführt auf dem Neßthaler Zuchtfeld des Kaiser-Wilhelm-Institutes, Bromberg, den Jahren 1916, 1917 und 1918. 1916 und 1918 war die Versuchsfläche ein und dieselbe, 6,80 groß und den beiden Jahren mit Original Klein-Wanzlebener Zuckerrüben auf 30 X 40 cm bebaut. Vorfrucht für 1916 war Hafer, für 1918 Roggen; 1917 war eine andere Fläche, ebenfalls 6,80 groß, für den Versuch benußt; gesät wurden zwei verschiedene Zuchten von Strube, Schlanstedt. Beide Flächen sind von sehr gleichmäßiger Bodenbeschaffenheit. Bei der Fläche 1916 und 1918 machte sich im ersten Jahre bei den Reihen 31-33 eine geringe Stelle bemerkbar, die 1918 weit weniger Erscheinung trat. Die Bodenunterschiede sind allen drei Jahren geringer als die durch die Versuchstechnik bedingten Fehler. Translated: (Roemer) experiments sugar beets, carried Neßthal breeding field Kaiser Wilhelm Institute, Bromberg, years 1916, 1917 1918. 1916 1918 test area one , 6.80 large original years Klein-Wanzleben sugar beets cultivated 30 x 40 cm. previous crop 1916 oats, 1918 rye; 1917 another area, also 6.80 large, used experiment; Two different varieties Strube, Schlanstedt sown. areas uniform soil conditions. 1916 1918 area, small spot noticeable rows 31-33 first year, much less noticeable 1918. three years soil differences smaller errors caused experimental technology.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-2","dir":"Articles","previous_headings":"—————————————————————————","what":"—","title":"Notes on uniformity data","text":"Haritonenko (36), Versuch der landwirtschaftlichen Versuchsstation Iwanowskoje, Gouvernement Nowgorod. Versuchsfläche 5 ha 68 mit 416 Teilstücken zu 136,5 qm. Die Reihe weist erheblich geringeren Boden auf als die drei anderen Reihen. Translated: Haritonenko (36), experiment Ivanovskoye Agricultural Experimental Station, Novgorod Governorate. Test area 5 ha 68 416 sections (plots) 136.5 square meters. Row significantly less soil three rows. Haritonenko, Pavlo. Neue Präzisionsmethoden auf den Versuchsfeldern. Arbeiten der landw. Versuchsstation Iwanowskoje 1904-06, S. 159. Note: P. Haritonenko sometimes translated Pavlo/Pavel Kharitonenko. English: Pavel Kharitonenko Russian: Павел Иванович Харитоненко Russian name Journal: Журнал опытной агрономии Paper volume? Zhurnal opytnoĭ agronomii. Russisches journal fūr experimentelle landwirtschaft. Journal de l’agriculture experimentale v.5 (1904) https://babel.hathitrust.org/cgi/pt?id=uc1.b2907722&seq=770 1905 vol 6. Paper volume? https://babel.hathitrust.org/cgi/pt?id=uc1.b2907723&seq=8 List volumes . Missing 1906 issue 1-2 https://catalog.hathitrust.org/Record/007918356","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-3","dir":"Articles","previous_headings":"—————————————————————————","what":"—-","title":"Notes on uniformity data","text":"Mercer und Hall (71), Mangold, Versuchsfeld Rothamsted. Versuchsfläche 40,40 mit 200 Teilstücken zu 20,2 qm (9,2×2,2 m). Das Feld ist weitgehend gleichmäßig, obwohl seine Qualität von Nord nach Süd abnimmt, wie aus den Mittelwerten zu ersehen ist. Trans: 5. Mercer Hall (71), Mangold, Rothamsted experimental field. Test area 40.40 200 sections 20.2 square meters (9.2 × 2.2 m). field largely uniform, although quality decreases north south, can seen averages. Mercer und Hall (71), Winterweizen, Versuchsfeld Rothamsted. Versuchsfläche 40,45 mit 500 Teilstücken zu 8,09 qm. Die Fläche ist weniger aus geglichen als jene von Versuch 5. Trans: 6. Mercer Hall (71), winter wheat, Rothamsted experimental field. Test area 40.45 500 sections 8.09 square meters. area less uniform experiment 5. Montgomery (86), Winterweizen, Versuchsfeld der Versuchsstation Nebraska, U. S. . Versuchsfläche 6 30 qm mit 224 Teilstücken zu 2,81 qm. Das Feld wird von unten nach oben hin besser, ist auch der rechten Hälfte ertragreicher als der linken, entspricht aber einem sehr ausgeglichenen Versuchsfelde der Praxis. Trans: 7. Montgomery (86), winter wheat, experimental field Nebraska Experimental Station, USA. Experimental area 6 30 square meters 224 sections 2.81 square meters. field gets better bottom top, also productive right half left, corresponds uniform experimental field practice. Tulaikow (131), Winterweizen, Versuchsfeld der landwirtschaftlichen Versuchsstation Besentschuk. Versuchsfläche 10 92 qm mit 240 Teilstücken zu 4,55 qm. Diese Fläche ist mäßig ausgeglichen. Translated: Tulaikow (131), Winter wheat, experimental field Besenchuk Agricultural Experimental Station. Test area 10 x 92 sqm 240 plots 4.55 sqm. area moderately uniform. Neyman cites: Tulaikow, Russian Journ Exp Agric 14 (1913). Number 2, p. 113 Tulaikow (131), Sommerweizen, genau wie bei Winterweizen, jedoch erscheint das Bild gleichmäßiger als jenes von Versuch 8. Trans: 9. Tulaikow (131), spring wheat, winter wheat, picture appears uniform experiment 8. Jegerow (52), Hafer, Versuchsfeld der landwirtschaftlichen Versuchsstation Saumy (Gouvernement Charkow), Versuchsfläche 10 92 qm mit 240 Teilstücken zu 4,55 qm. Sehr gleichmäßiges Versuchsfeld. Translated: 10. Jegerow (52), oats, experimental field Saumy agricultural experimental station (Kharkov Governorate), experimental area 10 x 92 sqm 240 sections 4.55 sqm. even test field. Larsen (49), Timothyheu, Versuchsfläche 60 mit 240 Teilstücken zu 25 qm. Die Versuchsfläche wird von Ost nach West langsam etwas besser, und von Süd nach Nord nimmt die Ertragsfähigkeit ziemlich stark ab (-Streifen 1496 kg, B-Streifen 1449 kg, C-Streifen 1326 kg). Trans: Timothy hay, test area 60 240 sections 25 square meters. test area slowly improves slightly east west, south north yield decreases quite sharply (strip 1496 kg, B strip 1449 kg, C strip 1326 kg). Lehmann (61), Reis, Versuchsfeld Hebbal bei Benjalore, Indien. Versuchsfläche 68,68 mit 34 Teilstücken zu 20,2 qm, durch vier Jahre (1905-1908) fortgeführt. Dieser Versuch ist seines geringen Umfanges wegen nicht für alle zu handelnden Fragen brauchbar. Trans: 12. Lehmann (61), Reis, Hebbal experimental field near Benjalore, India. Experimental area 68.68 34 sections 20.2 square meters, continued four years (1905-1908). small scope, experiment used questions addressed. Lehmann (61), Hirse, Versuchsfeld Hebbal bei Benjalore. Versuchsfläche 21 21 qm mit 105 Teilstüden zu 20,2 qm, durch drei Jahre (1905-1907) fortgesezt, jedoch sind die Teilstücke durch Gebäude getrennt. Dieses Versuchsfeld ist aus kleinbäuerlichem Besit zusammengekauft, also früheren Jahren verschieden arbeitet und bestellt worden, es ist die ungleichmäßigste Fläche von allen 13 Versuchen. Trans: 13. Lehmann (61), millet, Hebbal test field near Benjalore. Experimental area 21 x 21 sqm 105 sections 20.2 sqm, continued three years (1905-1907), sections separated buildings. experimental field purchased small farmers property therefore worked cultivated differently previous years. uneven area 13 experiments. Die Originalerntezahlen finden sich den Tabellen des Anhanges, die die Lage der Teilstücke erkennen lassen. Es ließ sich infolge verschiedener Anlage der Versuche nicht ermöglichen, daß alle Versuche einheitlicher Anordnung verrechnet wurden. Die Ergebnisse sind übereinstimmend, daß die gezogenen Schlußfolgerungen große Sicherheit besigen. Trans: original harvest figures can found tables appendix, show location cuts. Due different design experiments, possible experiments calculated uniform manner. results consistent conclusions drawn certain. Untersuchungen über Beeinflussung der Genauigkeit. Trans: Studies influence accuracy. Hand der bezeichneten 13 Versuche ich nun im einzelnen nachweisen, welche Umstände und welchem Maße diese auf die Genauigkeit der Versuchsergeb nisse einwirken. Es können jeweils nur die Endzahlen der mühsamen und sehr umfangreichen Berechnungen gegeben werden, die ich selbst ausgeführt habe. Trans: Using 13 experiments mentioned, now want demonstrate detail circumstances extent influence accuracy test results. final numbers laborious extensive calculations carried can given.","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-4","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Ehrenberg, P. 1920. Versuch eines Beweises für die Anwendbarkeit der Wahrscheinlichkeitsrechnung bei Feldversuchen. Die Landwirtschaflichen versuchs-stationen, 95, 157-294 https://archive.org/details/dielandwirtschaf9519reun/page/156/ https://www.google.com/books/edition/Die_Landwirtschaftlichen_Versuchs_Statio/h9FGAAAAYAAJ?hl=en&gbpv=1&dq=bolatitz+jegorow&pg=RA1-PA160&printsec=frontcover Extensive datasets given 1 row text per plot! , field layout given??? Ehrenberg, Mitteilungen der Landwirtschaflichen Institute der Kgl. Universitat Breslau, 6, 21 (1910). Jegorow Tulaikow Lehmann ragi Lehmann Lehmann 1907 Montgomery Larsen Page 288-290 summarizes many studies refers paper: Landw. Versuchs-Stationen Bd. 87 (1915), S. 34. https://www.google.com/books/edition/Die_Landwirthschaftlichen_Versuchs_Stati/qFPbIBaHZKUC?hl=en&gbpv=1 # ————————————————————————— Vageler, H. (1919) Beziehung zwischen Parzellengrösse und Fehler der Einzelbeobachtung bei Felderversuchen (Relation size plats error detached observations field experiments). Journal für Landwirtschaft, 67, 97-108. https://www.google.com/books/edition/Journal_f%C3%BCr_Landwirtschaft/JHAZAQAAIAAJ?hl=en&gbpv=1&dq=Vageler+Beziehung+zwischen+parzellengr%C3%B6sse&pg=PA107&printsec=frontcover 128 plots roggen (rye) hafer (oats) kartoffeln (potatoes) wruken (rape/rutabega/kohlrabi?) layout? : https://archive.org/details/journalfurlandwi6719unse/page/96/mode/2up?q=ehrenberg+%22versuch+eines+beweises%22","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-5","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Gorski Mentioned Neyman (1935). Gorski, M. Stefaniow, M. (1917). Die Anwendbarkeit der Wahrscheinlichkeits-rechnung bei Feldversuchen. Die Landwirtschaflichen Versuchsstationen, 90, 225-240. https://babel.hathitrust.org/cgi/pt?id=coo.31924078248048&seq=241&q1=gorski Two experiments given, 200 300 plots, layout? Gorski & Stefaniow. (1917) Zastosowanie rachunku prawdopodobienstwa doswiadczen polowych Roczniki Nauk Rolniczych. searched google books, hathi, archive Roczniki journal https://catalog.hathitrust.org/Record/007913696 11-12 1924 17-18 1927 1917 vol 11 1923 vol 9 1930 vol 24 See also Cochran, # 52","code":""},{"path":"/articles/agridat_uniformity_data.html","id":"section-6","dir":"Articles","previous_headings":"","what":"—————————————————————————","title":"Notes on uniformity data","text":"Geisler 1958. Downloaded. Uniformity trial (?) page 269.","code":""},{"path":"/authors.html","id":null,"dir":"","previous_headings":"","what":"Authors","title":"Authors and Citation","text":"Kevin Wright. Author, maintainer, copyright holder.","code":""},{"path":"/authors.html","id":"citation","dir":"","previous_headings":"","what":"Citation","title":"Authors and Citation","text":"Wright K (2024). agridat: Agricultural Datasets. R package version 1.23, https://kwstat.github.io/agridat/.","code":"@Manual{,   title = {agridat: Agricultural Datasets},   author = {Kevin Wright},   year = {2024},   note = {R package version 1.23},   url = {https://kwstat.github.io/agridat/}, }"},{"path":"/index.html","id":"agridat-","dir":"","previous_headings":"","what":"Agricultural Datasets","title":"Agricultural Datasets","text":"Homepage: https://kwstat.github.io/agridat Repository: https://github.com/kwstat/agridat agridat package provides extensive collection datasets agricultural experiments. datasets come books, papers, websites related agriculture. Example graphics analyses included. Data come small-plot trials, multi-environment trials, uniformity trials, yield monitors, . package tries make data FAIR: Findable, Accessible, Interoperable, Reusable.","code":""},{"path":"/index.html","id":"key-features","dir":"","previous_headings":"","what":"Key features","title":"Agricultural Datasets","text":"Thorough documentation. Examples (almost) every dataset.","code":""},{"path":"/index.html","id":"installation","dir":"","previous_headings":"","what":"Installation","title":"Agricultural Datasets","text":"","code":"# Install the released version from CRAN: install.packages(\"agridat\")  # Install the development version from GitHub: install.packages(\"devtools\") devtools::install_github(\"kwstat/agridat\")"},{"path":"/index.html","id":"usage","dir":"","previous_headings":"","what":"Usage","title":"Agricultural Datasets","text":"","code":"library(agridat) ?agridat # list all datasets with keywords"},{"path":"/notes_agridat.html","id":null,"dir":"","previous_headings":"","what":"License note","title":"License note","text":"Substantial effort made contact authors papers published within past decades secure permission use data package. U.S., raw data generally subject copyright. See   discussion. Data produced work United States government (including U.S. Department Agriculture) subject copyright. Creative Commons licenses can apply  database, factual data.","code":""},{"path":"/notes_agridat.html","id":"cochran-uniformity-done","dir":"","previous_headings":"","what":"Cochran uniformity done","title":"License note","text":"evans.sugarcane.uniformity goulden.barley.uniformity ducker.groundnut.uniformity immer.sugarbeet.uniformity (1931) mckinstry.cotton.uniformity saunders.maize.uniformity smith.wheat.uniformity data made available special help staff Rothamsted Research Library. Murray, E. K. S. (1934). value uniformity trial field experimentation rubber. Journal Agricultural Science, 24(2), 177-184. https://doi.org/10.1017/s0021859600006572 Reviewed. used. 2 years 5x5 grid rubber trees. Based data archived Rothamsted, used time.","code":""},{"path":"/notes_agridat.html","id":"folder-1-genstat-data","dir":"","previous_headings":"","what":"Folder 1 Genstat data","title":"License note","text":"101 # 1925-1934 single rows, series E/F 102 # 1925-1934 single rows, series G 103_goulden_barley # done Grown Dominion, 1931 104_beckett_coconut # 1919-1928, 22 plots, nuts per plot. Cochran paper #17 105_panse_cotton # done (see also 509) 106_mckinstry_cotton # done Gatooma 480 plots 107_saunders_maize # done Maize, Potchefstroom 1929-30 108 # Field B2a, B5b 109_saunders_maize # done Maize, Potchefstroom 1928-1929 110_immer_sugarbeet # done U Minn 1931 111_evans_sugarcane # done Squared values 112_sayer_sugarcane # done Harpr Jhili 113_christidis_wheat # done 114_smith_wheat # done Fairfield Smith data","code":""},{"path":"/notes_agridat.html","id":"folder-2-data-received-since-publication","dir":"","previous_headings":"","what":"Folder 2 Data received since publication","title":"License note","text":"201 # cotton Wad Medani, Sudan 202 # Wad Medani, Cotton 24x8=192 203 # 3x20, 1935-1936, weight rotl 204 # Letter Parish Fisher, 205 # Oats 1923, Sudan Grass 1923, Wheat 1922 (10x26=260 plots) 206 # done hutchinson.cotton 207 # done Letter Finney Kilby 1943 208_ducker_groundnut # done Letter Killby Fisher, Ducker groundnut data 209 # 1938 Summerby Cochran, Oats, 1921 3x33, Wheat todo. Data. pdf. 210 # 1937 Letter Summerby Cochran, Cochran Summerby 211 # 1943 Letter Finney Wadley. Thanks data. 212 # 1934 Letter Wadley Finney. Ribes data. 213 # ignore China, 1x16 214 # omit - clove trees 600, 5 years, coordinates, East Africa 215 # omit - clove tree part 2 216 # omit - wireworm traps, plant trial 217 # LeClerg field expt 1937-1938 sugar beet U Minn 218 # LeClerg greenhouse 1933 219 # 1939 letter LeClerg Cochran, Narain Cochran, Cochran Westover, Eden Cochran","code":""},{"path":"/notes_agridat.html","id":"folder-3","dir":"","previous_headings":"","what":"Folder 3","title":"License note","text":"301_day_table # done data.","code":""},{"path":"/notes_agridat.html","id":"folder-4-uniformity-trials-1936-1938","dir":"","previous_headings":"","what":"Folder 4 Uniformity trials 1936-1938","title":"License note","text":"folder contains correspondence 401 402_pound 403 cheesman christidis collinson collison 404 405_day # Done. demandt vandyk 406 407 408 posthumus 409_konigsberger demandt trials 410_demandt $ done 411 hutchinson immer look parnell 412 413 kirk parnell macdonald 414 metzger parker pound 415 pound reynolds(cotton) richardson 416_saunders # done 417_saunders sayer swanson 418_swanson thompson 419 thompson notes 420 day westover wilcox","code":""},{"path":"/notes_agridat.html","id":"folder-5-uniformity-data","dir":"","previous_headings":"","what":"Folder 5 Uniformity data","title":"License note","text":"501_metzger # multi-year series 502_kansas 503 504_goulden_barley # done goulden.barley.uniformity 505_beckett_coconut # multi-year, Cochran #17 506 507_coffee # coffee 1934-1939, Cochran #18 508_mckinstry_cotton # done mckinstry.cotton.uniformity (correspondence, hand-written) 509_panse_cotton # done panse.cotton.uniformity (see also 109) 510_christidis_wheat # done christidis.wheat.uniformity 511_sayer_sugarcane # done sayer.sugarcane.uniformity 1932, 48 rows, 20 columns 513_hastings_oats_1911 # 514_immer_sugarbeet # done. 60 row, 10 col, 2nd year data 515_sugarcane # barbados sugarcane 516_macdonald_cotton # field B2a B5b. See folder 1, file 8 517_rothamsted 518_saunders_maize_28_29 # done potchefstroom 519_saunders_maize_29_30 # done potchefstroom","code":""},{"path":"/notes_agridat.html","id":"folder-6-ovs-heath-cotton-uniformity-1934-1935","dir":"","previous_headings":"","what":"Folder 6 OVS Heath cotton uniformity 1934-1935","title":"License note","text":"Decided use data. 2 cut dates. data dry matter highly variable. field notes bit cryptic suggest lack uniformity plants handled (cut morning, afternoon, etc). 601 7/1 pt 2, copy 1, row 1-84, col k-u 602 7/1 pt 2, copy 2, row 1-84, col k-u 603 4/2 pt 1, copy2, row 1-84, col -k 604 4/2 pt 1, copy1, row 1-84, col -k 605 4/2 pt 2, copy2, row 1-84, col l-v 606 7/1 pt 1, copy 2, row 1-84, col za-j 607 experiment details 608 7/1 pt 1, copy 1, row 1-84, col za-j 609 4/2 pt 2, copy1, row 1-84, col l-v","code":""},{"path":"/notes_agridat.html","id":"folder-7-yield-of-grain-per-foot-fairfield-smith","dir":"","previous_headings":"","what":"Folder 7 Yield of grain per foot, Fairfield smith","title":"License note","text":"701_smith_correspondence # done 702_smith_reference # done 703_smith_ears_copy_B # done 704_smith_grain_copy_B # done 705_smith_grain_copy_A # done 707_smith_ears_copy_A # done","code":""},{"path":"/notes_agridat.html","id":"folder-8-catalog-of-uniformity-data","dir":"","previous_headings":"","what":"Folder 8 Catalog of uniformity data","title":"License note","text":"801_cochran_notes_1 802_cochran_notes_2 803_cochran_notes_3 804_cochran_notes_4 800_cochran_notes_0 805_evans_sugarcane_letter # done evans.sugarcane.uniformity 806_evans_sugarcane_data # done evans.sugarcane.uniformity","code":""},{"path":"/notes_agridat.html","id":"folder-9-demandt-1931","dir":"","previous_headings":"","what":"Folder 9 Demandt 1931","title":"License note","text":"Decided use data. little contextual information data. 901_demandt_diagram 902_demandt_data","code":""},{"path":"/notes_agridat.html","id":"to-do","dir":"","previous_headings":"","what":"To do","title":"License note","text":"change theobald.covariate JAGS brms? Figure best way use jags JAGS code edwards.oats JAGS code lee.potatoblight JAGS code theobald.barley JAGS code besag.elbatan Note: R_MAX_NUM_DLLS=150 Rcmd check –run-dontrun release devtools::run_examples(run=FALSE, start=“butron.maize”) build_site(lazy=TRUE, run=TRUE) use Roxygen document data, complain data/*.txt files error messages like: Error: ‘uscrime’ exported object ‘namespace:agridat’ document lists notes data sources searched additional sources agricultural data. Although .md file, formatting best viewed plain text mode. Henry Wallace archive Univ Iowa Library http://www.lib.uiowa.edu/sc/location--hours/ Henry Wallace research papers http://aspace.lib.uiowa.edu/repositories/2/archival_objects/400608 500 Ear experiment. Might data “corn judge’s mind” paper http://aspace.lib.uiowa.edu/repositories/2/archival_objects/400615","code":""},{"path":"/notes_agridat.html","id":"wanted","dir":"","previous_headings":"","what":"wanted","title":"License note","text":"Yield-monitor data split-planter field Yield-monitor data strip trial. Jose Crossa papers http://repository.cimmyt.org/xmlui/handle/10883/1/browse?value=Crossa,%20J.&type=author Meta-r http://repository.cimmyt.org/xmlui/handle/10883/4130 Data http://repository.cimmyt.org/xmlui/handle/10883/4036 http://repository.cimmyt.org/xmlui/handle/10883/2976 http://repository.cimmyt.org/xmlui/handle/10883/1380 http://repository.cimmyt.org/xmlui/handle/10883/4128 http://repository.cimmyt.org/xmlui/handle/10883/4290 Review meta-analyses agronomy http://www6.versailles-grignon.inra.fr/agronomie/Meta-analysis--agronomy/References","code":""},{"path":"/notes_agridat.html","id":"papers","dir":"","previous_headings":"","what":"Papers","title":"License note","text":"Biplot/StdErr/ VanEeuwijk 1993 - Incorporating env info Biplot Bartkowiak GxE table GE folder: Crossa 1997","code":""},{"path":"/notes_agridat.html","id":"malosetti-2013","dir":"","previous_headings":"","what":"Malosetti 2013","title":"License note","text":"F2 data. Folder: GE http://www.frontiersin.org/Plant_Physiology/10.3389/fphys.2013.00044/abstract CC license:","code":""},{"path":"/notes_agridat.html","id":"perez","dir":"","previous_headings":"","what":"Perez","title":"License note","text":"Comparison Linear Non-parametric Regression Models Genome-Enabled Prediction Wheat https://www.scienceopen.com/document/vid/4017fb51-381c-4374-93aa-608423df4004;jsessionid=0TLjjSbaooSUk1y3JKd4nUeb.master:-app1-prd Data: http://www.g3journal.org/content/suppl/2012/12/05/2.12.1595.DC1 content CC license","code":""},{"path":"/notes_agridat.html","id":"extension","dir":"","previous_headings":"","what":"Extension","title":"License note","text":"https://plant-breeding-genomics.extension.org/plant-breeding--genomics-learning-lessons https://plant-breeding-genomics.extension.org/estimating-heritability--blups--traits-using-tomato-phenotypic-data/ https://plant-breeding-genomics.extension.org/genomic-relationships--gblup <— todo review https://plant-breeding-genomics.extension.org/rrblup-package--r--genomewide-selection/","code":""},{"path":[]},{"path":[]},{"path":[]},{"path":"/notes_agridat.html","id":"agronomy-journal","dir":"","previous_headings":"","what":"Agronomy Journal","title":"License note","text":"Skimmed Vol 1","code":""},{"path":"/notes_agridat.html","id":"the-american-statistician","dir":"","previous_headings":"","what":"The American Statistician","title":"License note","text":"Vol 1-13","code":""},{"path":"/notes_agridat.html","id":"biometrics-skimmed-1947-2006","dir":"","previous_headings":"","what":"Biometrics. Skimmed 1947-2006","title":"License note","text":"http://www.jstor.org/action/showPublication?journalCode=biometrics","code":""},{"path":"/notes_agridat.html","id":"the-empire-journal-of-experimental-agriculture","dir":"","previous_headings":"","what":"The Empire Journal of Experimental Agriculture","title":"License note","text":"http://archive.org Vol 3-5, 23-24 26","code":""},{"path":"/notes_agridat.html","id":"field-crops-research","dir":"","previous_headings":"","what":"Field Crops Research.","title":"License note","text":"http://www.sciencedirect.com/science/journal/03784290/157 Vol 1-40","code":""},{"path":"/notes_agridat.html","id":"iasri-newsletters","dir":"","previous_headings":"","what":"IASRI newsletters","title":"License note","text":"http://www.iasri.res./NewsLetters/nl.HTM","code":""},{"path":"/notes_agridat.html","id":"indian-journal-of-agricultural-science","dir":"","previous_headings":"","what":"Indian Journal of Agricultural Science","title":"License note","text":"","code":"Vol 1. Vol 2. Vol 3. https://archive.org/details/in.ernet.dli.2015.271738/page/n653/mode/2up   544 5 varieties, 2 blocks, 4 reps/block Vol 4. Vol 5.   579. agridat::bose.multi.uniformity Vol 6. https://archive.org/details/in.ernet.dli.2015.271737   34. 4-way factorial (3 gen, 5 date, 3 spacing, 3 pop) non-contiguous sub-plots. agridat::chakravertti.factorial   460. agridat::kulkarni.sorghum.uniformity   917. agridat::sayer.sugarcane.uniformity Vol 9. Vol 10. Vol 11. Vol 12.   240. Wheat uniformity trial. agridat::iyer.wheat.uniformity Vol 14. Vol 16. Vol 17. Vol 19."},{"path":"/notes_agridat.html","id":"jabes","dir":"","previous_headings":"","what":"JABES","title":"License note","text":"Vol 6.","code":""},{"path":"/notes_agridat.html","id":"journal-of-the-american-society-of-agronomy","dir":"","previous_headings":"","what":"Journal of the American Society of Agronomy","title":"License note","text":"Vol 23.","code":""},{"path":"/notes_agridat.html","id":"journal-of-the-indian-society-of-agricultural-statistics","dir":"","previous_headings":"","what":"Journal of the Indian Society of Agricultural Statistics","title":"License note","text":"http://www.isas.org./jsp/onlinejournal.jsp Skimmed: Vol 50-56","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"jrssb-1940-1997","dir":"","previous_headings":"","what":"JRSSB 1940-1997","title":"License note","text":"http://www.jstor.org/action/showPublication?journalCode=jroyastatsocise4 Datasets 1998-2015 http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1467-9868/homepage/seriesb_datasets.htm http://onlinelibrary.wiley.com/journal/10.1111/%28ISSN%291467-985X/homepage/datasets_all_series.htm","code":""},{"path":"/notes_agridat.html","id":"jrssc-applied-statistics-datasets","dir":"","previous_headings":"","what":"JRSSC Applied Statistics datasets","title":"License note","text":"http://onlinelibrary.wiley.com/journal/10.1111/%28ISSN%291467-985X/homepage/datasets_all_series.htm 1998-2015","code":""},{"path":"/notes_agridat.html","id":"tidsskrift-for-planteavl-1895-1992","dir":"","previous_headings":"","what":"Tidsskrift for Planteavl 1895-1992","title":"License note","text":"http://dca.au.dk/publikationer/historiske/planteavl/","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"nebraska-agricultural-experiment-station-annual-report","dir":"","previous_headings":"","what":"Nebraska Agricultural Experiment Station Annual Report","title":"License note","text":"Vol 19-24, 1906-1911 https://books.google.com/books?id=HBlJAAAAMAAJ Vol 25, 1912 https://books.google.com/books?id=M-5BAQAAMAAJ","code":""},{"path":"/notes_agridat.html","id":"iowa-state-university-library-special-collections","dir":"","previous_headings":"","what":"Iowa State University Library Special Collections","title":"License note","text":"Helen Elizabeth Conners (1951). Field plot techniques sweet potatoes obtained uniformity trial data. Master’s Thesis. data given. Robert LeRoy Plaisted (1954). Field plot techniques estimating onion yields. Master’s Thesis. data given. Michael Holle. 1960. Plot technique field evaluation three characters lima bean. Master’s Thesis. data given. Howard Lewis Taylor (1951). effect plot shape experimental error. Master’s Thesis. data given. Used data corn uniformity trial, oats uniformity, data Fairfield Smith. Smaller experimental errors found long narrow plots.","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"jack-weiss","dir":"","previous_headings":"","what":"Jack Weiss","title":"License note","text":"Ecol 563 Stat Meth Ecology http://www.unc.edu/courses/2010fall/ecol/563/001/ Env Studies 562 Stat Envt Science http://www.unc.edu/courses/2010spring/ecol/562/001/ Ecol 145 http://www.unc.edu/courses/2006spring/ecol/145/001/docs/lectures.htm","code":""},{"path":[]},{"path":"/notes_agridat.html","id":"applied-statistics-in-agriculture-conference","dir":"","previous_headings":"","what":"Applied Statistics in Agriculture Conference","title":"License note","text":"http://newprairiepress.org/agstatconference/ 1989-2014","code":""},{"path":"/notes_agridat.html","id":"computers-and-electronics-in-agriculture","dir":"","previous_headings":"","what":"Computers and Electronics in Agriculture.","title":"License note","text":"http://www.sciencedirect.com/science/journal/01681699/103 Vol 1-110 180-191","code":""},{"path":"/notes_agridat.html","id":"journal-of-agricultural-science","dir":"","previous_headings":"","what":"Journal of Agricultural Science","title":"License note","text":"https://www.cambridge.org/core/journals/journal--agricultural-science/-issues 1900-2016","code":""},{"path":"/notes_agridat.html","id":"experimental-agriculture","dir":"","previous_headings":"","what":"Experimental Agriculture","title":"License note","text":"https://www.cambridge.org/core/journals/experimental-agriculture 1965-2016","code":""},{"path":"/reference/aastveit.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Barley heights and environmental covariates in Norway — aastveit.barley","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"Average height 15 genotypes barley 9 years.   Also 19 covariates 9 years.","code":""},{"path":"/reference/aastveit.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"","code":"data(\"aastveit.barley.covs\") data(\"aastveit.barley.height\")"},{"path":"/reference/aastveit.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"'aastveit.barley.covs' dataframe 9 observations following 20 variables. year year R1 avg rainfall (mm/day) period 1 R2 avg rainfall (mm/day) period 2 R3 avg rainfall (mm/day) period 3 R4 avg rainfall (mm/day) period 4 R5 avg rainfall (mm/day) period 5 R6 avg rainfall (mm/day) period 6 S1 daily solar radiation (ca/cm^2) period 1 S2 daily solar radiation (ca/cm^2) period 2 S3 daily solar radiation (ca/cm^2) period 3 S4 daily solar radiation (ca/cm^2) period 4 S5 daily solar radiation (ca/cm^2) period 5 S6 daily solar radiation (ca/cm^2) period 6 ST sowing time, measured days April 1 T1 avg temp (deg Celsius) period 1 T2 avg temp (deg Celsius) period 2 T3 avg temp (deg Celsius) period 3 T4 avg temp (deg Celsius) period 4 T5 avg temp (deg Celsius) period 5 T6 avg temp (deg Celsius) period 6 'aastveit.barley.height' dataframe 135 observations   following 3 variables. year year, 9 years spanning 1974 1982 gen genotype, 15 levels height height (cm)","code":""},{"path":"/reference/aastveit.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"Experiments conducted , Norway. height dataframe contains average plant height (cm) 15 varieties   barley 9 years. growth season year divided eight periods   sowing harvest.  plant stop growing 20 days   ear emergence, first 6 periods included . Used permission Harald Martens.","code":""},{"path":"/reference/aastveit.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"Aastveit, . H. Martens, H. (1986).   ANOVA interactions interpreted partial least squares regression.   Biometrics, 42, 829–844.   https://doi.org/10.2307/2530697","code":""},{"path":"/reference/aastveit.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"J. Chadoeuf J. B. Denis (1991).   Asymptotic variances multiplicative interaction model.   J. App. Stat., 18, 331-353.   https://doi.org/10.1080/02664769100000032","code":""},{"path":"/reference/aastveit.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Barley heights and environmental covariates in Norway — aastveit.barley","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(\"aastveit.barley.covs\") data(\"aastveit.barley.height\")  libs(reshape2, pls)      # First, PCA of each matrix separately    Z <- acast(aastveit.barley.height, year ~ gen, value.var=\"height\")   Z <- sweep(Z, 1, rowMeans(Z))   Z <- sweep(Z, 2, colMeans(Z)) # Double-centered   sum(Z^2)*4 # Total SS = 10165   sv <- svd(Z)$d   round(100 * sv^2/sum(sv^2),1) # Prop of variance each axis   # Aastveit Figure 1.  PCA of height   biplot(prcomp(Z),          main=\"aastveit.barley - height\", cex=0.5)      U <- aastveit.barley.covs   rownames(U) <- U$year   U$year <- NULL   U <- scale(U) # Standardized covariates   sv <- svd(U)$d   # Proportion of variance on each axis   round(100 * sv^2/sum(sv^2),1)    # Now, PLS relating the two matrices   m1 <- plsr(Z~U)   loadings(m1)   # Aastveit Fig 2a (genotypes), but rotated differently   biplot(m1, which=\"y\", var.axes=TRUE)   # Fig 2b, 2c (not rotated)   biplot(m1, which=\"x\", var.axes=TRUE)    # Adapted from section 7.4 of Turner & Firth,   # \"Generalized nonlinear models in R: An overview of the gnm package\"   # who in turn reproduce the analysis of Chadoeuf & Denis (1991),   # \"Asymptotic variances for the multiplicative interaction model\"    libs(gnm)   dath <- aastveit.barley.height   dath$year = factor(dath$year)    set.seed(42)   m2 <- gnm(height ~ year + gen + Mult(year, gen), data = dath)   # Turner: \"To obtain parameterization of equation 1, in which sig_k is the   # singular value for component k, the row and column scores must be constrained   # so that the scores sum to zero and the squared scores sum to one.   # These contrasts can be obtained using getContrasts\"   gamma <- getContrasts(m2, pickCoef(m2, \"[.]y\"),                         ref = \"mean\", scaleWeights = \"unit\")   delta <- getContrasts(m2, pickCoef(m2, \"[.]g\"),                         ref = \"mean\", scaleWeights = \"unit\")   # estimate & std err   gamma <- gamma$qvframe   delta <- delta$qvframe   # change sign of estimate   gamma[,1] <- -1 * gamma[,1]   delta[,1] <- -1 * delta[,1]   # conf limits based on asymptotic normality, Chadoeuf table 8, p. 350,    round(cbind(gamma[,1], gamma[, 1] +                            outer(gamma[, 2], c(-1.96, 1.96))) ,3)     round(cbind(delta[,1], delta[, 1] +                            outer(delta[, 2], c(-1.96, 1.96))) ,3) } # }"},{"path":"/reference/acorsi.grayleafspot.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"Multi-environment trial evaluating 36 maize genotypes 9 locations","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"","code":"data(\"acorsi.grayleafspot\")"},{"path":"/reference/acorsi.grayleafspot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"data frame 324 observations following 3 variables. gen genotype, 36 levels env environment, 9 levels rep replicate, 2 levels y grey leaf spot severity","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"Experiments conducted 9 environments Brazil 2010-11.    location RCB 2 reps. response variable percentage leaf area affected gray   leaf spot within experimental unit (plot). Acorsi et al. use data illustrate fitting generalized   AMMI model non-normal data.","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"C. R. L. Acorsi, T. . Guedes, M. M. D. Coan, R. J. B. Pinto,   C. . Scapim, C. . P. Pacheco, P. E. O. Guimaraes, C. R. Casela. (2016).   Applying generalized additive main effects multiplicative   interaction model analysis maize genotypes resistant grey leaf spot.   Journal Agricultural Science.   https://doi.org/10.1017/S0021859616001015 Electronic data R code kindly provided Marlon Coan.","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"None","code":""},{"path":"/reference/acorsi.grayleafspot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial evaluating 36 maize genotypes in 9 locations — acorsi.grayleafspot","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(acorsi.grayleafspot)   dat <- acorsi.grayleafspot      # Acorsi figure 2. Note: Acorsi used cell means   op <- par(mfrow=c(2,1), mar=c(5,4,3,2))   libs(lattice)   boxplot(y ~ env, dat, las=2,           xlab=\"environment\", ylab=\"GLS severity\")   title(\"acorsi.grayleafspot\")   boxplot(y ~ gen, dat, las=2,           xlab=\"genotype\", ylab=\"GLS severity\")   par(op)      # GLM models      # glm main-effects model with logit u(1-u) and wedderburn u^2(1-u)^2   # variance functions   # glm1 <- glm(y~ env/rep + gen + env, data=dat, family=quasibinomial)   # glm2 <- glm(y~ env/rep + gen + env, data=dat, family=wedderburn)   # plot(glm2, which=1); plot(glm2, which=2)      # GAMMI models of Acorsi. See also section 7.4 of Turner   # \"Generalized nonlinear models in R: An overview of the gnm package\"      # full gnm model with wedderburn, seems to work   libs(gnm)   set.seed(1)   gnm1 <- gnm(y ~  env/rep + env + gen + instances(Mult(env,gen),2),               data=dat,               family=wedderburn, iterMax =800)   deviance(gnm1) # 433.8548   # summary(gnm1)   # anova(gnm1, test =\"F\")  # anodev, Acorsi table 4   ##                          Df Deviance Resid. Df Resid. Dev       F    Pr(>F)       ## NULL                                       647     3355.5                         ## env                       8  1045.09       639     2310.4 68.4696 < 2.2e-16 ***   ## env:rep                   9    12.33       630     2298.1  0.7183    0.6923       ## gen                      35  1176.23       595     1121.9 17.6142 < 2.2e-16 ***   ## Mult(env, gen, inst = 1) 42   375.94       553      745.9  4.6915 < 2.2e-16 ***   ## Mult(env, gen, inst = 2) 40   312.06       513      433.9  4.0889 3.712e-14 ***     # maybe better, start simple and build up the model   gnm2a <- gnm(y ~  env/rep + env + gen,                data=dat,                family=wedderburn, iterMax =800)    # add first interaction term   res2a <- residSVD(gnm2a, env, gen, 2)   gnm2b <- update(gnm2a, . ~ . + Mult(env,gen,inst=1),                   start = c(coef(gnm2a), res2a[, 1]))   deviance(gnm2b) # 692.19    # add second interaction term   res2b <- residSVD(gnm2b, env, gen, 2)   gnm2c <- update(gnm2b, . ~ . + Mult(env,gen,inst=1) + Mult(env,gen,inst=2),                   start = c(coef(gnm2a), res2a[, 1], res2b[,1]))   deviance(gnm2c) # 433.8548   # anova(gnm2c) # weird error message    # note, to build the ammi biplot, use the first column of res2a to get   # axis 1, and the FIRST column of res2b to get axis 2. Slightly confusing   emat <- cbind(res2a[1:9, 1], res2b[1:9, 1])   rownames(emat) <- gsub(\"fac1.\", \"\", rownames(emat))      gmat <- cbind(res2a[10:45, 1], res2b[10:45, 1])   rownames(gmat) <- gsub(\"fac2.\", \"\", rownames(gmat))    # match Acorsi figure 4   biplot(gmat, emat, xlim=c(-2.2, 2.2), ylim=c(-2.2, 2.2), expand=2, cex=0.5,          xlab=\"Axis 1\", ylab=\"Axis 2\",          main=\"acorsi.grayleafspot - GAMMI biplot\") } # }"},{"path":"/reference/adugna.sorghum.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"Multi-environment trial sorghum 3 locations across 5 years","code":""},{"path":"/reference/adugna.sorghum.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"data frame 289 observations following 6 variables. gen genotype, 28 levels trial trial, 2 levels env environment, 13 levels yield yield kg/ha year year, 2001-2005 loc location, 3 levels","code":""},{"path":"/reference/adugna.sorghum.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"Sorghum yields 3 locations across 5 years.   trials carried three locations dry, hot lowlands   Ethiopia: Melkassa (39 deg 21 min E, 8 deg 24 min N) Mieso (39 deg 22 min E, 8 deg 41 min N) Kobo (39 deg 37 min E, 12 deg 09 min N) Trial 1 14 hybrids one open-pollinated variety. Trial 2 12 experimental lines. Used permission Asfaw Adugna.","code":""},{"path":"/reference/adugna.sorghum.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"Asfaw Adugna (2008).   Assessment yield stability sorghum using   univariate multivariate statistical approaches.   Hereditas, 145, 28–37.   https://doi.org/10.1111/j.0018-0661.2008.2023.x","code":""},{"path":"/reference/adugna.sorghum.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of sorghum at 3 locations across 5 years — adugna.sorghum","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(adugna.sorghum) dat <- adugna.sorghum  libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield ~ env*gen, data=dat, main=\"adugna.sorghum gxe heatmap\",           col.regions=redblue)  # Genotype means match Adugna tapply(dat$yield, dat$gen, mean)  # CV for each genotype.  G1..G15 match, except for G2. # The table in Adugna scrambles the means for G16..G28 libs(reshape2) mat <- acast(dat, gen~env,  value.var='yield') round(sqrt(apply(mat, 1, var, na.rm=TRUE)) / apply(mat, 1, mean, na.rm=TRUE) * 100,2)  # Shukla stability.  G1..G15 match Adugna.  Can't match G16..G28. dat1 <- droplevels(subset(dat, trial==\"T1\")) mat1 <- acast(dat1, gen~env,  value.var='yield') w <- mat1; k=15; n=8  # k=p gen, n=q env w <- sweep(w, 1, rowMeans(mat1, na.rm=TRUE)) w <- sweep(w, 2, colMeans(mat1, na.rm=TRUE)) w <- w + mean(mat1, na.rm=TRUE) w <- rowSums(w^2, na.rm=TRUE) sig2 <- k*w/((k-2)*(n-1)) - sum(w)/((k-1)*(k-2)*(n-1)) round(sig2/10000,1) # Genotypes in T1 are divided by 10000 } # }"},{"path":"/reference/agridat.html","id":null,"dir":"Reference","previous_headings":"","what":"Datasets from agricultural experiments — agridat","title":"Datasets from agricultural experiments — agridat","text":"package contains datasets publications relating agriculture,   including field crops, tree crops, animal studies, others.","code":""},{"path":"/reference/agridat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Datasets from agricultural experiments — agridat","text":"use data, please cite agridat package   original source data. Abbreviations '' column include:   xy = coordinates,   pls = partial least squares,   rsm = response surface methodology,   row-col = row-column design,   ts = time series, Uniformity trials single genotype  Yield monitor  Animals  Trees  Field horticulture crops Time series Summaries: Diallel experiments: Factorial experiments: Multi-environment trials multi-genotype,loc,rep,year: Data markers: hadasch.lettuce.markers, steptoe.morex.geno Data pedigree: butron.maize","code":""},{"path":"/reference/agridat.html","id":"author","dir":"Reference","previous_headings":"","what":"Author","title":"Datasets from agricultural experiments — agridat","text":"Kevin Wright, support many people granted permission include data package.","code":""},{"path":"/reference/agridat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Datasets from agricultural experiments — agridat","text":"J. White Frits van Evert. (2008).   Publishing Agronomic Data.   Agron J. 100, 1396-1400.   https://doi.org/10.2134/agronj2008.0080F","code":""},{"path":"/reference/allcroft.lodging.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of cereal with lodging data — allcroft.lodging","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"Percent lodging given 32 genotypes 7 environments.","code":""},{"path":"/reference/allcroft.lodging.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"data frame 224 observations following 3 variables. env environment, 1-7 gen genotype, 1-32 y percent lodged","code":""},{"path":"/reference/allcroft.lodging.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"data first year three-year study. Used permission Chris Glasbey.","code":""},{"path":"/reference/allcroft.lodging.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"D. J. Allcroft C. . Glasbey, 2003.   Analysis crop lodging using latent variable model.   Journal Agricultural Science, 140, 383–393.   https://doi.org/10.1017/S0021859603003332","code":""},{"path":"/reference/allcroft.lodging.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of cereal with lodging data — allcroft.lodging","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(allcroft.lodging) dat <- allcroft.lodging  # Transformation dat$sy <- sqrt(dat$y) # Variety 4 has no lodging anywhere, so add a small amount dat[dat$env=='E5' & dat$gen=='G04',]$sy <- .01  libs(lattice) dotplot(env~y|gen, dat, as.table=TRUE,         xlab=\"Percent lodged (by genotype)\", ylab=\"Variety\",         main=\"allcroft.lodging\")  # Tobit model libs(AER) m3 <- tobit(sy ~ 1 + gen + env, left=0, right=100, data=dat)  # Table 2 trial/variety means preds <- expand.grid(gen=levels(dat$gen), env=levels(dat$env)) preds$pred <- predict(m3, newdata=preds) round(tapply(preds$pred, preds$gen, mean),2) round(tapply(preds$pred, preds$env, mean),2)  } # }"},{"path":"/reference/alwan.lamb.html","id":null,"dir":"Reference","previous_headings":"","what":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"34 sheep sires, number lambs 5 foot shape classes.","code":""},{"path":"/reference/alwan.lamb.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"","code":"data(\"alwan.lamb\")"},{"path":"/reference/alwan.lamb.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"data frame 340 observations following 11 variables. year numeric 1980/1981 breed breed PP, BRP, BR sex sex lamb M/F sire0 sire ID according Alwan shape sire ID according Gilmour count number lambs sire shape foot yr numeric contrast year b1 numeric contrast breeds b2 numeric contrast breeds b3 numeric contrast breeds","code":""},{"path":"/reference/alwan.lamb.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"2513 lambs classified presence deformities   feet.  lambs represent offspring 34 sires, 5 strains,   2 years. variables yr, b1, b2, b3 numeric contrasts fixed   effects defined paper Gilmour (1987) used SAS   example. Gilmour explain reason particular   contrasts. counts classes LF1, LF2, LF3 combined.","code":""},{"path":"/reference/alwan.lamb.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"Mohammed Alwan (1983).   Studies flock mating performance Booroola merino crossbred ram lambs, foot conditions Booroola merino crossbreds Perendale sheep grazed hill country.   Thesis, Massey University. https://hdl.handle.net/10179/5900   Appendix , II.","code":""},{"path":"/reference/alwan.lamb.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"Gilmour, Anderson, Rae (1987).   Variance components underlying scale ordered multiple threshold categorical data using generalized linear mixed model.   Journal Animal Breeding Genetics, 104, 149-155.   https://doi.org/10.1111/j.1439-0388.1987.tb00117.x SAS/STAT(R) 9.2 Users Guide, Second Edition   Example 38.11 Maximum Likelihood Proportional Odds Model Random Effects   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm","code":""},{"path":"/reference/alwan.lamb.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"For the 34 sheep sires, the number of lambs in each of 5 foot shape classes. — alwan.lamb","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(alwan.lamb)   dat <- alwan.lamb    # merge LF1 LF2 LF3 class counts, and combine M/F   dat$shape <- as.character(dat$shape)   dat$shape <- ifelse(dat$shape==\"LF2\", \"LF3\", dat$shape)   dat$shape <- ifelse(dat$shape==\"LF1\", \"LF3\", dat$shape)   dat <- aggregate(count ~ year+breed+sire0+sire+shape+yr+b1+b2+b3,                    dat, FUN=sum)    dat <- transform(dat,                    year=factor(year), breed=factor(breed),                    sire0=factor(sire0), sire=factor(sire))   # LF5 or LF3 first is a bit arbitary...affects the sign of the coefficients   dat <- transform(dat, shape=ordered(shape, levels=c(\"LF5\",\"LF4\",\"LF3\")))      # View counts by year and breed   libs(latticeExtra)   dat2 <- aggregate(count ~ year+breed+shape, dat, FUN=sum)   useOuterStrips(barchart(count ~ shape|year*breed, data=dat2,                           main=\"alwan.lamb\"))    # Model used by Gilmour and SAS   dat <- subset(dat, count > 0)    libs(ordinal)   m1 <- clmm(shape ~ yr + b1 + b2 + b3 + (1|sire), data=dat,              weights=count, link=\"probit\", Hess=TRUE)   summary(m1) # Very similar to Gilmour results   ordinal::ranef(m1) # sign is opposite of SAS    ## SAS var of sires .04849   ## Effect   Shape   Estimate   Standard Error   DF   t Value   Pr > |t|   ## Intercept   1   0.3781   0.04907   29   7.71   <.0001   ## Intercept   2   1.6435   0.05930   29   27.72   <.0001   ## yr       0.1422   0.04834   2478   2.94   0.0033   ## b1       0.3781   0.07154   2478   5.28   <.0001   ## b2       0.3157   0.09709   2478   3.25   0.0012   ## b3       -0.09887   0.06508   2478   -1.52   0.1289      ## Gilmour results for probit analysis   ## Int1   .370 +/- .052   ## Int2  1.603 +/- .061   ## Year  -.139 +/- .052   ## B1    -.370 +/- .076   ## B2    -.304 +/- .103   ## B3     .098 +/- .070    # Plot random sire effects with intervals, similar to SAS example   plot.random <- function(model, random.effect, ylim=NULL, xlab=\"\", main=\"\") {     tab <- ordinal::ranef(model)[[random.effect]]     tab <- data.frame(lab=rownames(tab), est=tab$\"(Intercept)\")     tab <- transform(tab,                      lo = est - 1.96 * sqrt(model$condVar),                      hi = est + 1.96 * sqrt(model$condVar))     # sort by est, and return index     ix <- order(tab$est)     tab <- tab[ix,]          if(is.null(ylim)) ylim <- range(c(tab$lo, tab$hi))     n <- nrow(tab)     plot(1:n, tab$est, axes=FALSE, ylim=ylim, xlab=xlab,          ylab=\"effect\", main=main, type=\"n\")     text(1:n, tab$est, labels=substring(tab$lab,2) , cex=.75)     axis(1)     axis(2)     segments(1:n, tab$lo, 1:n, tab$hi, col=\"gray30\")     abline(h=c(-.5, -.25, 0, .25, .5), col=\"gray\")     return(ix)     }   ix <- plot.random(m1, \"sire\")    # foot-shape proportions for each sire, sorted by estimated sire effects   # positive sire effects tend to have lower proportion of lambs in LF4 and LF5   tab <- prop.table(xtabs(count ~ sire+shape, dat), margin=1)   tab <- tab[ix,]   tab <- tab[nrow(tab):1,] # reverse the order   lattice::barchart(tab,                     horizontal=FALSE, auto.key=TRUE,                     main=\"alwan.lamb\", xlab=\"Sire\", ylab=\"Proportion of lambs\",                     scales=list(x=list(rot=70)),                     par.settings = simpleTheme(col=c(\"yellow\",\"orange\",\"red\")) )      detach(\"package:ordinal\") # to avoid VarCorr clash with lme4    } # }"},{"path":"/reference/ansari.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — ansari.wheat.uniformity","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"Uniformity trial wheat India 1940.","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"","code":"data(\"ansari.wheat.uniformity\")"},{"path":"/reference/ansari.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"data frame 768 observations following 3 variables. row row col column yield yield grain per plot, half-ounces","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"experiment conducted Government Research Farm, Raya   (Muttra District), rainy season 1939-40. \"Wheat sown area 180 ft. x 243 ft. 324 rows   field average fertility. wheat 1938-39 rabi   fallow 1939-40 kharif. seed sown behind desi plough   rows 9 inches apart, length row 180 feet\". \"time harvest, 18 rows sides 10 feet end   field discarded eliminate border effects area   160 feet x 216 feet 288 rows harvested small units,   2 feet 3 inches broad three rows 20 feet long. 96   units across rows eight units along rows. total number   unit plots thus obtained 768. yield grain unit   plot weighed recorded separately given appendix.\" Field width: 96 plots * 2.25 feet = 216 feet. Field length: 8 plots * 20 feet = 160 feet. Comment: seems strong cyclical patern fertility gradient.   \"History field reveals explanation phenomenon, average   field usually found farm selected trial.\"","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"Ansari, M. . ., G. K. Sant (1943).   Study Soil Heterogeneity Relation Size Shape Plots Wheat Field Raya (Muhra District).   Ind. J. Agr. Sci, 13, 652-658.   https://archive.org/details/.ernet.dli.2015.271748","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"None","code":""},{"path":"/reference/ansari.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — ansari.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(ansari.wheat.uniformity)   dat <- ansari.wheat.uniformity    # match Ansari figure 3   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=216/160, # true aspect           main=\"ansari.wheat.uniformity\")   } # }"},{"path":"/reference/arankacami.groundnut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"Uniformity trial groundnut","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"","code":"data(\"arankacami.groundnut.uniformity\")"},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"data frame 96 observations following 3 variables. row row col column yield yield, kg/plot","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"year experiment unknown, 1995. Basic plot size 0.75 m (rows) x  4 m (columns).","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"Ira Arankacami, R. Rangaswamy. (1995).   Text Book Agricultural Statistics.   New Age International Publishers.   Table 19.1. Page 237.   https://www.google.com/books/edition/A_Text_Book_of_Agricultural_Statistics/QDLWE4oakSgC","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"None","code":""},{"path":"/reference/arankacami.groundnut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of groundnut — arankacami.groundnut.uniformity","text":"","code":"if (FALSE) { # \\dontrun{ library(agridat) data(arankacami.groundnut.uniformity) dat <- arankacami.groundnut.uniformity  require(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=(12*.75)/(8*4),         main=\"arankacami.groundnut.uniformity\")  } # }"},{"path":"/reference/archbold.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-split plot experiment of apple trees — archbold.apple","title":"Split-split plot experiment of apple trees — archbold.apple","text":"Split-split plot experiment apple trees different spacing,   root stock, cultivars.","code":""},{"path":"/reference/archbold.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-split plot experiment of apple trees — archbold.apple","text":"data frame 120 observations following 10 variables. rep block, 5 levels row row pos position within row spacing spacing trees, 6,10,14 feet stock rootstock, 4 levels gen genotype, 2 levels yield yield total, kg/tree 1975-1979 trt treatment code","code":""},{"path":"/reference/archbold.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-split plot experiment of apple trees — archbold.apple","text":"rep 1, 10-foot-spacing main plot split two   non-contiguous pieces.  also happened rep 4.  analysis   Cornelius Archbold, consider row x within-row-spacing   distinct main plot.  (Also true 14-foot row-spacing,   even though 14-foot spacing plots contiguous.) treatment code defined 100 * spacing + 10 * stock + gen,   stock=0,1,6,7 Seedling,MM111,MM106,M0007 gen=1,2   Redspur,Golden, respectively.","code":""},{"path":"/reference/archbold.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-split plot experiment of apple trees — archbold.apple","text":"D Archbold G. R. Brown P. L. Cornelius. (1987).   Rootstock -row spacing effects growth yield spur-type   delicious Golden delicious apple.   Journal American Society Horticultural Science, 112, 219-222.","code":""},{"path":"/reference/archbold.apple.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-split plot experiment of apple trees — archbold.apple","text":"Cornelius, PL Archbold, DD, 1989.   Analysis split-split plot experiment missing data using   mixed model equations.   Applications Mixed Models Agriculture Related     Disciplines.  Pages 55-79.","code":""},{"path":"/reference/archbold.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-split plot experiment of apple trees — archbold.apple","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(archbold.apple) dat <- archbold.apple  # Define main plot and subplot dat <- transform(dat, rep=factor(rep), spacing=factor(spacing), trt=factor(trt),                  mp = factor(paste(row,spacing,sep=\"\")),                  sp = factor(paste(row,spacing,stock,sep=\"\")))  # Due to 'spacing', the plots are different sizes, but the following layout # shows the relative position of the plots and treatments. Note that the # 'spacing' treatments are not contiguous in some reps. libs(desplot) desplot(dat, spacing~row*pos,         col=stock, cex=1, num=gen, # aspect unknown         main=\"archbold.apple\")   libs(lme4, lucid)   m1 <- lmer(yield ~ -1 + trt + (1|rep/mp/sp), dat)  vc(m1)  # Variances/means on Cornelius, page 59 ##         grp        var1 var2   vcov sdcor ## sp:(mp:rep) (Intercept) <NA>  193.3 13.9 ##      mp:rep (Intercept) <NA>  203.8 14.28 ##         rep (Intercept) <NA>  197.3 14.05 ##    Residual        <NA> <NA> 1015   31.86    } # }"},{"path":"/reference/ars.earlywhitecorn96.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"Multi-environment trial early white food corn 60 white hybrids.","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"data frame 540 observations following 9 variables. loc location, 9 levels gen gen, 60 levels yield yield, bu/ac stand stand, percent rootlodge root lodging, percent stalklodge stalk lodging, percent earht ear height, inches flower days flower moisture moisture, percent","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"Data average 3 replications. Yields measured plot converted bushels / acre   adjusted 15.5 percent moisture. Stand expressed percentage optimum plant stand. Lodging expressed percentage total plants hybrid. Ear height measured soil level top ear leaf collar.   Heights expressed inches. Days flowering number days planting mid-tassel mid-silk. Moisture grain measured harvest.","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"L. Darrah, R. Lundquist, D. West, C. Poneleit, B. Barry, B. Zehr,   . Bockholt, L. Maddux, K. Ziegler, P. Martin. (1996).   White Food Corn 1996 Performance Tests.   Agricultural Research Service Special Report 502.","code":""},{"path":"/reference/ars.earlywhitecorn96.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of early white food corn — ars.earlywhitecorn96","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)      data(ars.earlywhitecorn96)   dat <- ars.earlywhitecorn96    libs(lattice)   # These views emphasize differences between locations   dotplot(gen~yield, dat, group=loc, auto.key=list(columns=3),           main=\"ars.earlywhitecorn96\")   ## dotplot(gen~stalklodge, dat, group=loc, auto.key=list(columns=3),   ##         main=\"ars.earlywhitecorn96\")   splom(~dat[,3:9], group=dat$loc, auto.key=list(columns=3),         main=\"ars.earlywhitecorn96\")      # MANOVA   m1 <- manova(cbind(yield,earht,moisture) ~ gen + loc, dat)   m1   summary(m1)    } # }"},{"path":"/reference/australia.soybean.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of soybean in Australia — australia.soybean","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"Yield traits 58 varieties soybeans, grown four   locations across two years Australia.  four-way data   Year x Loc x Gen x Trait.","code":""},{"path":"/reference/australia.soybean.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"data frame 464 observations following 10 variables. env environment, 8 levels, first character location       last two characters year loc location year year gen genotype soybeans, 1-58 yield yield, metric tons / hectare height height (meters) lodging lodging size seed size, (millimeters) protein protein (percentage) oil oil (percentage)","code":""},{"path":"/reference/australia.soybean.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"Measurement available four locations Queensland, Australia two   consecutive years 1970, 1971. 58 different genotypes soybeans consisted 43 lines (40 local   Australian selections cross, two parents, one   used parent earlier trials) 15 lines   12 US. Lines 1-40 local Australian selections Mamloxi (CPI 172)   Avoyelles (CPI 15939). Note data Basford Tukey book. values line 58 Nambour 1970 Redland Bay 1971 incorrectly listed page 477 20.490 15.070. 17.350 13.000, respectively. data set made available , values corrected. Used permission Kaye Basford, Pieter Kroonenberg.","code":""},{"path":"/reference/australia.soybean.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"Basford, K. E., Tukey, J. W. (1999).   Graphical analysis multiresponse data illustrated plant breeding trial.   Chapman Hall/CRC. Retrieved :   https://three-mode.leidenuniv.nl/data/soybeaninf.htm","code":""},{"path":"/reference/australia.soybean.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"K E Basford (1982). Use Multidimensional Scaling Analysing   Multi-Attribute Genotype Response Across Environments,   Aust J Agric Res, 33, 473–480. Kroonenberg, P. M., & Basford, K. E. B. (1989). investigation   multi-attribute genotype response across environments using three-mode   principal component analysis.   Euphytica, 44, 109–123. Marcin Kozak (2010).   Use parallel coordinate plots multi-response selection   interesting genotypes.   Communications Biometry Crop Science, 5, 83-95.","code":""},{"path":"/reference/australia.soybean.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of soybean in Australia — australia.soybean","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(australia.soybean)   dat <- australia.soybean    libs(reshape2)   dm <- melt(dat, id.var=c('env', 'year','loc','gen'))    # Joint plot of genotypes & traits. Similar to Figure 1 of Kroonenberg 1989   dmat <- acast(dm, gen~variable, fun=mean)   dmat <- scale(dmat)   biplot(princomp(dmat), main=\"australia.soybean trait x gen biplot\", cex=.75)     # Figure 1 of Kozak 2010, lines 44-58   libs(reshape2, lattice, latticeExtra)   data(australia.soybean)   dat <- australia.soybean   dat <- melt(dat, id.var=c('env', 'year','loc','gen'))   dat <- acast(dat, gen~variable, fun=mean)   dat <- scale(dat)   dat <- as.data.frame(dat)[,c(2:6,1)]   dat$gen <- rownames(dat)   # data for the graphic by Kozak   dat2 <- dat[44:58,]   dat3 <- subset(dat2, is.element(gen, c(\"G48\",\"G49\",\"G50\",\"G51\")))    parallelplot( ~ dat3[,1:6]|dat3$gen, main=\"australia.soybean\",                as.table=TRUE, horiz=FALSE) +     parallelplot( ~ dat2[,1:6], horiz=FALSE, col=\"gray80\") +     parallelplot( ~ dat3[,1:6]|dat3$gen,                  as.table=TRUE, horiz=FALSE, lwd=2)  } # }"},{"path":"/reference/bachmaier.nitrogen.html","id":null,"dir":"Reference","previous_headings":"","what":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Trial wheat nitrogen fertilizer two fertility zones","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"","code":"data(\"bachmaier.nitrogen\")"},{"path":"/reference/bachmaier.nitrogen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"data frame 88 observations following 3 variables. nitro nitrogen fertilizer, kg/ha yield wheat yield, Mg/ha zone fertility zone","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Data wheat fertilizer experiment Germany two yield zones.   zone, design RCB 4 blocks 11 nitrogen   levels.   yield plot measured. Electronic data originally downloaded   http://www.tec.wzw.tum.de/bachmaier/vino.zip (longer available).","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Bachmaier, Martin. 2009.   Confidence Set X-Coordinate Quadratic Regression   Model Given Gradient.   Statistical Papers 50: 649–60. https://doi.org/10.1007/s00362-007-0104-1.","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"Bachmaier, Martin.   Test confidence set difference x-coordinates   vertices two quadratic regression models.   Stat Papers (2010) 51:285–296, https://doi.org/10.1007/s00362-008-0159-7","code":""},{"path":"/reference/bachmaier.nitrogen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Trial of wheat with nitrogen fertilizer in two fertility zones — bachmaier.nitrogen","text":"","code":"library(agridat) data(bachmaier.nitrogen) dat <- bachmaier.nitrogen  # Fit a quadratic model for the low-fertility zone dlow <- subset(dat, zone==\"low\") m1 <- lm(yield ~ nitro + I(nitro^2), dlow)  # Slope of tangent line for economic optimum m <- .005454 # = (N 0.60 euro/kg) / (wheat 110 euro/Mg) # x-value of tangent point b1 <- coef(m1)[2] b2 <- coef(m1)[3] opt.bach <- (m-b1)/(2*b2) round(opt.bach, 0) #> nitro  #>   199   # conf int for x value of tangent point round(vcovs <- vcov(m1), 7) #>             (Intercept)      nitro I(nitro^2) #> (Intercept)   0.1346512 -0.0016680    4.7e-06 #> nitro        -0.0016680  0.0000295   -1.0e-07 #> I(nitro^2)    0.0000047 -0.0000001    0.0e+00 b1b1 <- vcovs[2,2] # estimated var of b1 b1b2 <- vcovs[2,3] # estimated cov of b1,b2 b2b2 <- vcovs[3,3] tval <- qt(1 - 0.05/2, nrow(dlow)-3) A <- b2^2 - b2b2 * tval^2 B <- (b1-m)*b2 - b1b2 * tval^2 C <- ((b1-m)^2 - b1b1 * tval^2)/4 D <- B^2 - 4*A*C x.lo <- -2*C / (B-sqrt(B^2-4*A*C)) x.hi <- (-B + sqrt(B^2-4*A*C))/(2*A) ci.bach <- c(x.lo, x.hi) round(ci.bach,0) # 95% CI 173,260 Matches Bachmaier #> nitro nitro  #>   173   260   # Plot raw data, fitted quadratic, optimum, conf int plot(yield~nitro, dlow) p1 <- data.frame(nitro=seq(0,260, by=1)) p1$pred <- predict(m1, new=p1) lines(pred~nitro, p1) abline(v=opt.bach, col=\"blue\") abline(v=ci.bach, col=\"skyblue\") title(\"Economic optimum with 95 pct confidence interval\")"},{"path":"/reference/bailey.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"Uniformity trial cotton Egypt 1921-1923.","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"","code":"data(\"bailey.cotton.uniformity\")"},{"path":"/reference/bailey.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"data frame 794 observations following 5 variables. row row ordinate col column ordinate yield yield, rotls year year loc location","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"Two pickings taken. weights seeds cotton first   second pickings totaled. Yields measured \"rotl\",   \"order pound\". Layout Sakha Gemmeiza (page 9):   Total area 4.86 feddans.   bed 20 ridges 7 m , total dimension 15 m x 7 m.   Add 1.5m irrigation channel.   Center--center distances 15m x 8.5m. Charts 3 & 5 show yield \"Selected Average Plants\". data   used . Chart 1: Sakha 1921, 8 x 20. Bed yield rotls. Length 20 ridges * .75 m = 15m. Width = 7m. Chart 2: Gemmeiza 1921, 8 x 20. Chart 3: Total S..P. yield grams. (used ) Chart 4: Gemmeiza 1922, 8 x 20. Chart 5: Total S..P. yield grams. (used ) Layout Giza (page 10) Beds 8 ridges 7 m , total dimension 6m x 7m.   Add 1.5m irrigation channel.   Center--center distance 6m x 8.5m Chart 6 - Giza 1921, 14 x 11 = 154 plots Chart 7 - Giza 1923, 20 x 8 = 160 plots Bailey said results Giza 1921 suitable reliability   experiments. Data typed proofread KW 2023.01.11","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"Bailey, M. ., Trought, T. (1926).   account experiments carried determine experimental error field trials cotton Egypt.   Egypt Ministry Agriculture, Technical Science Service Bulletin 63, Min. Agriculture Egypt Technical Science Bulletin 63.   https://www.google.com/books/edition/Bulletin/xBQlAQAAIAAJ?pg=PA46-IA205","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"None","code":""},{"path":"/reference/bailey.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton in Egypt — bailey.cotton.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(bailey.cotton.uniformity)   dat <- bailey.cotton.uniformity   dat <- transform(dat, env=paste(year,loc))    # Data check. Matches Bailey 1926 Table 1. 28.13, , 46.02, 31.74, 13.52   libs(dplyr)   # dat     libs(desplot)   desplot(dat, yield ~ col*row|env, main=\"bailey.cotton.uniformity\")    # The yield scales are quite different at each loc, and the dimensions   # are different, so plot each location separately.   # Note: Bailey does not say if plots are 7x15 meters, or 15x7 meters.   # The choices here seem most likely in our opinion.   desplot(dat, yield ~ col*row, subset= env==\"1921 Sakha\",     main=\"1921 Sakha\", aspect=(20*8.5)/(8*15))   desplot(dat, yield ~ col*row, subset= env==\"1921 Gemmeiza\",     main=\"1921 Gemmeiza\", aspect=(20*8.5)/(8*15))   desplot(dat, yield ~ col*row, subset= env==\"1922 Gemmeiza\",     main=\"1922 Gemmeiza\", aspect=(20*8.5)/(8*15))   desplot(dat, yield ~ col*row, subset= env==\"1921 Giza\",     main=\"1921 Giza\", aspect=(11*6)/(14*8.5))   # 1923 Giza has alternately hi/lo yield rows. Not noticed by Bailey.   desplot(dat, yield ~ col*row, subset= env==\"1923 Giza\",     main=\"1923 Giza\", aspect=(20*6)/(8*8.5))    } # }"},{"path":"/reference/baker.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"Uniformity trials barley Davis, California, 1925-1935, 10 years ground.","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"data frame 570 observations following 4 variables. row row col column year year yield yield, pounds/acre","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"Ten years uniformity trials sown ground.  Baker   (1952) shows map field, gravel subsoil extended   upper right corner diagonally lower-center.   part field lower yields 10-year average map. Plot 41 1928 missing. Field width: 19 plots = 827 ft Field length: 3 plots * 161 ft + 2 alleys * 15 feet = 513 ft","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"Baker, GA Huberty, MR Veihmeyer, FJ.  (1952)   uniformity trial unirrigated barley ten years' duration.   Agronomy Journal, 44, 267-270.   https://doi.org/10.2134/agronj1952.00021962004400050011x","code":""},{"path":"/reference/baker.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of barley, 10 years on same ground — baker.barley.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(baker.barley.uniformity) dat <- baker.barley.uniformity  # Ten-year average dat2 <- aggregate(yield ~ row*col, data=dat, FUN=mean, na.rm=TRUE)  libs(desplot) desplot(dat, yield~col*row|year,         aspect = 513/827, # true aspect         main=\"baker.barley.uniformity - heatmaps by year\")  desplot(dat2, yield~col*row,         aspect = 513/827, # true aspect         main=\"baker.barley.uniformity - heatmap of 10-year average\") # Note low yield in upper right, slanting to left a bit due to sandy soil # as shown in Baker figure 1.   # Baker fig 2, stdev vs mean dat3 <- aggregate(yield ~ row*col, data=dat, FUN=sd, na.rm=TRUE) plot(dat2$yield, dat3$yield, xlab=\"Mean yield\", ylab=\"Std Dev yield\",      main=\"baker.barley.uniformity\")  # Baker table 4, correlation of plots across years # libs(reshape2) # mat <- acast(dat, row+col~year) # round(cor(mat, use='pair'),2)  } # }"},{"path":"/reference/baker.strawberry.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of strawberry — baker.strawberry.uniformity","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"Uniformity trial strawberry","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"","code":"data(\"baker.strawberry.uniformity\")"},{"path":"/reference/baker.strawberry.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"data frame 700 observations following 4 variables. trial Factor trial row row ordinate col column ordinate yield yield per plant/plot grams","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"Trial T1: 200 plants grown two double-row beds Davis,   California, 1946. rows 1 foot apart. beds 42 inches   apart. plants 10 inches apart within row, row   consisting 50 plants. Field length: 50 plants * 10 inches = 500 inches. Field width: 12 + 42 + 12 = 66 inches. layout experiment Table 1 shows 4 columns.   12 inches column 1 column 2, 42 inches,   12 inches column 3 column 4.   data R package, added 3 right two columns   index values indicate layout.   (3.5, want integer). Trial T2: 500 plants grown single beds. beds 30   inches apart. bed 50 plants long 10 inches   plants. Field length: 50 plants * 10 = 500 . Field width: 10 beds * 30 = 300 .","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"G. . Baker R. E. Baker (1953).   Strawberry Uniformity Yield Trials.   Biometrics, 9, 412-421.   https://doi.org/10.2307/3001713","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"None","code":""},{"path":"/reference/baker.strawberry.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of strawberry — baker.strawberry.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(baker.strawberry.uniformity) dat <- baker.strawberry.uniformity  # Match mean and cv of Baker p 414. libs(dplyr) dat <- group_by(dat, trial) summarize(dat, mn=mean(yield), cv=sd(yield)/mean(yield))  libs(desplot) desplot(dat, yield ~ col*row, subset=trial==\"T1\",         flip=TRUE, aspect=500/66, tick=TRUE,         main=\"baker.strawberry.uniformity - trial T1\") desplot(dat, yield ~ col*row, subset=trial==\"T2\",         flip=TRUE, aspect=500/300, tick=TRUE,         main=\"baker.strawberry.uniformity - trial T2\")  } # }"},{"path":"/reference/baker.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — baker.wheat.uniformity","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"Uniformity trial wheat","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"","code":"data(\"baker.wheat.uniformity\")"},{"path":"/reference/baker.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"data frame 225 observations following 3 variables. row row col col yield yield (grams)","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"Data collected 1939-1940.  trial consists sixteen 40 ft. x 40 ft. blocks subdivided nine plots . data secured 1939-1940 White Federation wheat. design experiment square alleys 20 feet wide blocks. plots 10 feet long two guard rows side. Morning glories infested middle two columns blocks, uniformly blocks affected. data include missing values alleys field map approximately correct shape size. Field width: 4 blocks 40 feet + 3 alleys 20 feet = 220 feet. Field length: 4 blocks 40 feet + 3 alleys 20 feet = 220 feet.","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"G. . Baker, E. B. Roessler (1957).   Implications uniformity trial small plots wheat.   Hilgardia, 27, 183-188.   https://hilgardia.ucanr.edu/Abstract/?=hilg.v27n05p183   https://doi.org/10.3733/hilg.v27n05p183","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"None","code":""},{"path":"/reference/baker.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — baker.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(baker.wheat.uniformity)   dat <- baker.wheat.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=1,           main=\"baker.wheat.uniformity\")  } # }"},{"path":"/reference/bancroft.peanut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of peanuts — bancroft.peanut.uniformity","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"Uniformity trial peanuts Alabama, 1946.","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"","code":"data(\"bancroft.peanut.uniformity\")"},{"path":"/reference/bancroft.peanut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"data frame 216 observations following 5 variables. row row col column yield yield, pounds per plot block block","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"data obtained two parts field, located   Wiregrass Substation, Headland, Alabama, USA.  part 18 rows,   3 feet wide, 100 feet long. Plots harvested 1946. Green   weights pounds recorded. plot 16.66 linear feet row 3 feet width, 50 sq feet. Field width: 6 plots * 16.66 feet = 100 feet Field length: 18 plots * 3 feet = 54 feet Conclusions:   Based relative efficiencies, increasing size plot   along row better across row.  Narrow, rectangular   plots efficient.","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"Bancroft, T. . et a1., (1948).   Size Shape Plots Distribution Plot Yield Field Experiments Peanuts.   Alabama Agricultural Experiment Station Progress Report, sec. 39.   Table 4, page 6.   https://aurora.auburn.edu/bitstream/handle/11200/1345/0477PROG.pdf;sequence=1","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"None","code":""},{"path":"/reference/bancroft.peanut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of peanuts — bancroft.peanut.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(bancroft.peanut.uniformity) dat <- bancroft.peanut.uniformity    # match means Bancroft page 3 ## dat  ## # A tibble: 2 x 2 ##   block    mn ##   <chr> <dbl> ## 1 B1     2.46 ## 2 B2     2.05    libs(desplot) desplot(dat, yield ~ col*row|block,         flip=TRUE, aspect=(18*3)/(6*16.66), # true aspect         main=\"bancroft.peanut.uniformity\")  } # }"},{"path":"/reference/barrero.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize in Texas. — barrero.maize","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"Multi-environment trial maize Texas.","code":""},{"path":"/reference/barrero.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"","code":"data(\"barrero.maize\")"},{"path":"/reference/barrero.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"data frame 14568 observations following 15 variables. year year testing, 2000-2010 yor year release, 2000-2010 loc location, 16 places Texas env environment (year+loc), 107 levels rep replicate, 1-4 gen genotype, 847 levels daystoflower numeric plantheight plant height, cm earheight ear height, cm population plants per hectare lodged percent plants lodged moisture moisture percent testweight test weight kg/ha yield yield, Mt/ha","code":""},{"path":"/reference/barrero.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"large (14500 records), multi-year, multi-location, 10-trait   dataset Texas AgriLife Corn Performance Trials. data 2-row plots approximately 36in wide 25 feet long. Barrero et al. used data estimate genetic gain maize   hybrids 10-year period time. Used permission Seth Murray.","code":""},{"path":"/reference/barrero.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"Barrero, Ivan D. et al. (2013).   multi-environment trial analysis shows slight grain yield improvement Texas commercial maize.   Field Crops Research, 149, Pages 167-176.   https://doi.org/10.1016/j.fcr.2013.04.017","code":""},{"path":"/reference/barrero.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"None.","code":""},{"path":"/reference/barrero.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize in Texas. — barrero.maize","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(barrero.maize)   dat <- barrero.maize    library(lattice)   bwplot(yield ~ factor(year)|loc, dat,          main=\"barrero.maize - Yield trends by loc\",          scales=list(x=list(rot=90)))      # Table 6 of Barrero. Model equation 1.   if(require(\"asreml\", quietly=TRUE)){     libs(dplyr,lucid)     dat <- arrange(dat, env)     dat <- mutate(dat,                   yearf=factor(year), env=factor(env),                   loc=factor(loc), gen=factor(gen), rep=factor(rep))        m1 <- asreml(yield ~ loc + yearf + loc:yearf, data=dat,                  random = ~ gen + rep:loc:yearf +                    gen:yearf + gen:loc +                    gen:loc:yearf,                  residual = ~ dsum( ~ units|env),                  workspace=\"500mb\")        # Variance components for yield match Barrero table 6.     lucid::vc(m1)[1:5,]     ##        effect component std.error z.ratio bound      ## rep:loc:yearf   0.111     0.01092    10       P 0       ##           gen   0.505     0.03988    13       P 0       ##     gen:yearf   0.05157   0.01472     3.5     P 0       ##       gen:loc   0.02283   0.0152      1.5     P 0.2     ## gen:loc:yearf   0.2068    0.01806    11       P 0            summary(vc(m1)[6:112,\"component\"]) # Means match last row of table 6     ##   Min. 1st Qu.  Median    Mean 3rd Qu.    Max.      ## 0.1286  0.3577  0.5571  0.8330  1.0322  2.9867    } } # }"},{"path":"/reference/batchelor.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"Uniformity trials apples, lemons, oranges, walnuts,   California & Utah, 1915-1918.","code":""},{"path":"/reference/batchelor.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"dataset following format row row col column yield yield per tree pounds","code":""},{"path":"/reference/batchelor.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"trees affected disease eliminated yield   replaced average eight surrounding trees. following details Batchelor (1918). Jonathan Apples \"apple records obtained 10-year old   Jonathan apple orchard located Providence, Utah. surface soil   orchard uniform appearances except   extreme eastern edge, percentage gravel increases   slightly.  trees planted 16 feet apart, east west, 30   feet apart north south.\" Note: orientation field given paper,   fields paper north top, assumed   true field well.  Yields may 1916. Field width: 8 trees * 16 feet = 128 feet Field length: 28 rows * 30 feet = 840 feet Eureka Lemon lemon (Citrus limonia) tree yields obtained grove   364 23-year-old trees, located Upland, California. records   extend October 1, 1915, October 1, 1916. grove consists   14 rows 23-year-old trees, extending north south, 26 trees   row, planted 24 24 feet apart. grove presents   uniform appearance consideration [paper].   land practically level, soil apparently uniform   texture. records show grouping several low-yielding trees;   yet field observation gives one impression grove   whole remarkably uniform. Field width: 14 trees * 24 feet = 336 feet Field length: 26 trees * 24 feet = 624 feet Navel 1 Arlington records 1915-16 yields one thousand 24-year-old   navel-orange trees near Arlington station, Riverside, California.   grove consists 20 rows trees north south, 50 trees   row, planted 22 22 feet. study records shows certain   distinct high- low-yielding areas. northeast corner   south end contain notably high-yielding trees. north two-thirds   west side contains large number low-yielding trees.   areas apparently correlated soil variation. Variations   tree tree also occur, cause evident.   variations, present every orchard, bring uncertainty   results offield experiments. Field width: 20 trees * 22 feet = 440 feet Field length: 50 trees * 22 feet = 1100 feet Navel 2 Antelope navel-orange grove later referred Antelope Heights   navels plantation 480 ten-yearold trees planted 22 22 feet,   located Naranjo, California. yields 1916. general   appearance trees gives visual impression uniformity   greater comparison individual tree production   substantiates. Field width: 15 trees * 22 feet = 330 feet Field length: 33 trees * 22 feet = 726 feet Valencia Orange Valencia orange grove composed 240 15-year-old trees,   planted 21 feet 6 inches 22 feet 6 inches, located Villa Park,   California. yields obtained 1916. Field width: 12 rows * 22 feet = 264 feet Field length: 20 rows * 22 feet = 440 feet Walnut walnut (Juglans regia) yields obtained seasons   1915 1916 24-year-old Santa Barbara softshell seedling   grove, located Whittier, California.   [Note, yields appear 1915 yields.]   planting laid 10 trees wide 32 trees long, entirely   surrounded additional walnut plantings, except part one   side adjacent orange grove. trees planted   square system, 50 feet apart. Field width: 10 trees * 50 feet = 500 feet Field length: 32 trees * 50 feet = 1600 feet","code":""},{"path":"/reference/batchelor.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"L. D. Batchelor H. S. Reed. (1918).   Relation variability yields fruit trees accuracy   field trials. J. Agric. Res, 12, 245–283.   https://books.google.com/books?id=Lil6AAAAMAAJ&lr&pg=PA245","code":""},{"path":"/reference/batchelor.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/batchelor.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of apples, lemons, oranges, and walnuts — batchelor.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) libs(desplot)    # Apple   data(batchelor.apple.uniformity)   desplot(batchelor.apple.uniformity, yield~col*row,           aspect=840/128, tick=TRUE, # true aspect           main=\"batchelor.apple.uniformity\")    # Lemon   data(batchelor.lemon.uniformity)   desplot(batchelor.lemon.uniformity, yield~col*row,           aspect=624/336, # true aspect           main=\"batchelor.lemon.uniformity\")    # Navel1 (Arlington)   data(batchelor.navel1.uniformity)   desplot(batchelor.navel1.uniformity, yield~col*row,           aspect=1100/440, # true aspect           main=\"batchelor.navel1.uniformity - Arlington\")    # Navel2 (Antelope)   data(batchelor.navel2.uniformity)   desplot(batchelor.navel2.uniformity, yield~col*row,           aspect=726/330, # true aspect           main=\"batchelor.navel2.uniformity - Antelope\")    # Valencia   data(batchelor.valencia.uniformity)   desplot(batchelor.valencia.uniformity, yield~col*row,           aspect=440/264, # true aspect           main=\"batchelor.valencia.uniformity\")    # Walnut   data(batchelor.walnut.uniformity)   desplot(batchelor.walnut.uniformity, yield~col*row,           aspect=1600/500, # true aspect           main=\"batchelor.walnut.uniformity\")  } # }"},{"path":"/reference/battese.survey.html","id":null,"dir":"Reference","previous_headings":"","what":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"Survey satellite data corn soy areas Iowa","code":""},{"path":"/reference/battese.survey.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"","code":"data(\"battese.survey\")"},{"path":"/reference/battese.survey.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"data frame 37 observations following 9 variables. county county name segment sample segment number (within county) countysegs number segments county cornhect hectares corn segment soyhect hectares soy cornpix pixels corn segment soypix pixels soy cornmean county mean corn pixels per segment soymean county mean soy pixels per segment","code":""},{"path":"/reference/battese.survey.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"data 12 counties north-central Iowa 1978. USDA determined area soybeans 37 area sampling units   (called 'segments').  segment one square mile (259   hectares).  number pixels classified corn   soybeans came Landsat images obtained Aug/Sep 1978. pixel   represents approximately 0.45 hectares. Data originally compiled USDA. data also available R packages: 'rsae::landsat' 'JoSAE::landsat'.","code":""},{"path":"/reference/battese.survey.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"Battese, George E Harter, Rachel M Fuller, Wayne . (1988).   error-components model prediction county crop areas using   survey satellite data.   Journal American Statistical Association, 83, 28-36.   https://doi.org/10.2307/2288915 Battese (1982) preprint version.   https://www.une.edu.au/__data/assets/pdf_file/0017/15542/emetwp15.pdf","code":""},{"path":"/reference/battese.survey.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"Pushpal K Mukhopadhyay Allen McDowell. (2011).   Small Area Estimation Survey Data Analysis Using SAS Software   SAS Global Forum 2011.","code":""},{"path":"/reference/battese.survey.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Survey and satellite data for corn and soy areas in Iowa — battese.survey","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(battese.survey) dat <- battese.survey  # Battese fig 1 & 2.  Corn plot shows outlier in Hardin county libs(lattice) dat <- dat[order(dat$cornpix),] xyplot(cornhect ~ cornpix, data=dat, group=county, type=c('p','l'),        main=\"battese.survey\", xlab=\"Pixels of corn\", ylab=\"Hectares of corn\",        auto.key=list(columns=3))  dat <- dat[order(dat$soypix),] xyplot(soyhect ~ soypix, data=dat, group=county, type=c('p','l'),        main=\"battese.survey\", xlab=\"Pixels of soy\", ylab=\"Hectares of soy\",        auto.key=list(columns=3))  libs(lme4, lucid)    # Fit the models of Battese 1982, p.18.  Results match m1 <- lmer(cornhect ~ 1 + cornpix + (1|county), data=dat) fixef(m1) ## (Intercept)     cornpix  ##   5.4661899   0.3878358  vc(m1) ##      grp        var1 var2   vcov  sdcor ##   county (Intercept) <NA>  62.83  7.926 ## Residual        <NA> <NA> 290.4  17.04  m2 <- lmer(soyhect ~ 1 + soypix + (1|county), data=dat) fixef(m2) ## (Intercept)      soypix  ##  -3.8223566   0.4756781  vc(m2) ##      grp        var1 var2  vcov sdcor ##   county (Intercept) <NA> 239.2 15.47 ## Residual        <NA> <NA> 180   13.42    # Predict for Humboldt county as in Battese 1982 table 2 5.4662+.3878*290.74 # 118.2152 # mu_i^0 5.4662+.3878*290.74+ -2.8744 # 115.3408 # mu_i^gamma (185.35+116.43)/2 # 150.89 # y_i bar    # Survey regression estimator of Battese 1988    # Delete the outlier dat2 <- subset(dat, !(county==\"Hardin\" & soyhect < 30))    # Results match top-right of Battese 1988, p. 33 m3 <- lmer(cornhect ~ cornpix + soypix + (1|county), data=dat2) fixef(m3) ## (Intercept)     cornpix      soypix  ##  51.0703979   0.3287217  -0.1345684  vc(m3) ##      grp        var1 var2  vcov sdcor ##   county (Intercept) <NA> 140   11.83 ## Residual        <NA> <NA> 147.3 12.14 m4 <- lmer(soyhect ~ cornpix + soypix + (1|county), data=dat2) fixef(m4) ##  (Intercept)      cornpix       soypix  ## -15.59027098   0.02717639   0.49439320  vc(m4) ##      grp        var1 var2  vcov sdcor ##   county (Intercept) <NA> 247.5 15.73 ## Residual        <NA> <NA> 190.5 13.8   } # }"},{"path":"/reference/beall.webworms.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"Counts webworms beet field, insecticide treatments.","code":""},{"path":"/reference/beall.webworms.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"","code":"data(\"beall.webworms\")"},{"path":"/reference/beall.webworms.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"data frame 1300 observations following 7 variables. row row col column y count webworms block block trt treatment spray spray treatment yes/lead lead treatment yes/","code":""},{"path":"/reference/beall.webworms.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"beet webworm lays egg masses small 1 egg, seldom exceeding 5   eggs. larvae can move freely, usually mature plant   hatch. plot contained 25 unit areas, 1 row 3 feet long.  row   width 22 inches.  arrangement plots within blocks seems   certain, arrangement blocks/treatments certain,   since authors say \"since plots 5 units long 5 wide   practicable combine groups 5 one   direction \". Treatment 1 = None.  Treatment 2 = Contact spray. Treatment 3 = Lead   arsenate. Treatment 4 = spray, lead arsenate.","code":""},{"path":"/reference/beall.webworms.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"Beall, Geoffrey (1940).   fit significance contagious distributions applied   observations larval insects.   Ecology, 21, 460-474. Table 6.   https://doi.org/10.2307/1930285","code":""},{"path":"/reference/beall.webworms.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"Michal Kosma et al. (2019).   -dispersed count data crop agronomy research.   Journal Agronomy Crop Science.   https://doi.org/10.1111/jac.12333","code":""},{"path":"/reference/beall.webworms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of webworms in a beet field, with insecticide treatments. — beall.webworms","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(beall.webworms) dat <- beall.webworms  # Match Beall table 1 # with(dat, table(y,trt))  libs(lattice) histogram(~y|trt, data=dat, layout=c(1,4), as.table=TRUE,           main=\"beall.webworms\")  # Visualize Beall table 6.  Block effects may exist, but barely. libs(desplot) grays <- colorRampPalette(c(\"white\",\"#252525\")) desplot(dat, y ~ col*row,         col.regions=grays(10),         at=0:10-0.5,         out1=block, out2=trt, num=trt, flip=TRUE, # aspect unknown         main=\"beall.webworms (count of worms)\")  # Following plot suggests interaction is needed # with(dat, interaction.plot(spray, lead, y))  # Try the models of Kosma et al, Table 1.  # Poisson model m1 <- glm(y ~ block + spray*lead, data=dat, family=\"poisson\") logLik(m1) # -1497.719 (df=16)  # Negative binomial model # libs(MASS) # m2 <- glm.nb(y ~ block + spray*lead, data=dat) # logLik(m2) # -1478.341 (df=17)  # # Conway=Maxwell-Poisson model (takes several minutes) # libs(spaMM) # # estimate nu parameter # m3 <- fitme(y ~ block + spray*lead, data=dat, family = COMPoisson()) # logLik(m3) # -1475.999  # # Kosma logLik(m3)=-1717 seems too big. Typo? Different model?  } # }"},{"path":"/reference/beaven.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Yields 8 barley varieties 1913.","code":""},{"path":"/reference/beaven.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"","code":"data(\"beaven.barley\")"},{"path":"/reference/beaven.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"data frame 160 observations following 4 variables. row row col column gen genotype yield yield (grams)","code":""},{"path":"/reference/beaven.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Eight races barley grown regular pattern plots. data prepared Richey (1926) text   cleaner. plot planted 40 inches side, middle square   36 inches side harvested. Field width: 32 plots * 3 feet = 96 feet Field length: 5 plots * 3 feet = 15 feet","code":""},{"path":"/reference/beaven.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Student. (1923).   testing varieties cereals.   Biometrika, 271-293. https://doi.org/10.1093/biomet/15.3-4.271","code":""},{"path":"/reference/beaven.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"Frederick D. Richey (1926).   moving average basis measuring correlated   variation agronomic experiments.   Jour. Agr. Research, 32, 1161-1175.","code":""},{"path":"/reference/beaven.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yields of 8 barley varieties in 1913 as used by Student. — beaven.barley","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(beaven.barley) dat <- beaven.barley  # Match the means shown in Richey table IV tapply(dat$yield, dat$gen, mean) ##       a       b       c       d       e       f       g       h ## 298.080 300.710 318.685 295.260 306.410 276.475 304.605 271.820  # Compare to Student 1923, diagram I,II libs(desplot) desplot(dat, yield ~ col*row,         aspect=15/96, # true aspect         main=\"beaven.barley - variety trial\", text=gen) } # }"},{"path":"/reference/becker.chicken.html","id":null,"dir":"Reference","previous_headings":"","what":"Mating crosses of chickens — becker.chicken","title":"Mating crosses of chickens — becker.chicken","text":"Mating crosses chickens","code":""},{"path":"/reference/becker.chicken.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Mating crosses of chickens — becker.chicken","text":"","code":"data(\"becker.chicken\")"},{"path":"/reference/becker.chicken.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Mating crosses of chickens — becker.chicken","text":"data frame 45 observations following 3 variables. male male parent female female parent weight weight (g) 8 weeks","code":""},{"path":"/reference/becker.chicken.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Mating crosses of chickens — becker.chicken","text":"large flock White Rock chickens, five male sires chosen   mated three female dams, producing 3 female progeny.   data body weights eight weeks age. Becker (1984) used data demonstrate calculation   heritability.","code":""},{"path":"/reference/becker.chicken.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Mating crosses of chickens — becker.chicken","text":"Walter . Becker (1984).   Manual Quantitative Genetics, 4th ed. Page 83.","code":""},{"path":"/reference/becker.chicken.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Mating crosses of chickens — becker.chicken","text":"None","code":""},{"path":"/reference/becker.chicken.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Mating crosses of chickens — becker.chicken","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(becker.chicken)   dat <- becker.chicken      libs(lattice)   dotplot(weight ~ female, data=dat, group=male,           main=\"becker.chicken - progeny weight by M*F\",           xlab=\"female parent\",ylab=\"progeny weight\",           auto.key=list(columns=5))    # Sums match Becker   # sum(dat$weight)   # aggregate(weight ~  male + female, dat, FUN=sum)    # Variance components   libs(lme4,lucid)   m1 <- lmer(weight ~  (1|male) + (1|female), data=dat)   # vc(m1)   ## grp        var1 var2      vcov    sdcor   ## 1   female (Intercept) <NA> 1096   33.1   ## 2     male (Intercept) <NA>  776.8 27.87   ## 3 Residual        <NA> <NA> 5524   74.32    # Calculate heritabilities   # s2m <- 776  # variability for males   # s2f <- 1095 # variability for females   # s2w <- 5524 # variability within crosses   # vp <- s2m + s2f + s2w # 7395   # 4*s2m/vp # .42 male heritability   #4*s2f/vp # .59 female heritability  } # }"},{"path":"/reference/belamkar.augmented.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"Multi-environment trial wheat Nebraska Augmented design","code":""},{"path":"/reference/belamkar.augmented.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"","code":"data(\"belamkar.augmented\")"},{"path":"/reference/belamkar.augmented.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"data frame 2700 observations following 9 variables. loc location rep replicate iblock incomplete block gen_new new genotype (1=yes, 0=) gen_check check genotype (0=) gen genotype name col column ordinate row row ordinate yield yield, bu/ac","code":""},{"path":"/reference/belamkar.augmented.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"experiment 8 locations 270 new, experimental lines   (genotypes) 3 check lines. 10 incomplete blocks   location. 2 replicate blocks Alliance 1 block   locations. plot 3 m long 1.2 m wide. electronic data found supplement S4 downloaded   https://doi.org/10.25387/g3.6249410   license data CC-4.0.","code":""},{"path":"/reference/belamkar.augmented.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"Vikas Belamkar, Mary J. Guttieri, Waseem Hussain, Diego Jarquín,   Ibrahim El-basyoni, Jesse Poland, Aaron J. Lorenz, P. Stephen   Baenziger (2018).   Genomic Selection Preliminary Yield Trials Winter Wheat   Breeding Program.   G3 Genes|Genomes|Genetics, 8, Pages 2735–2747.   https://doi.org/10.1534/g3.118.200415","code":""},{"path":"/reference/belamkar.augmented.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"data appear ASRtriala package: https://vsni.co.uk/free-software/asrtriala","code":""},{"path":"/reference/belamkar.augmented.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat with Augmented design — belamkar.augmented","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(belamkar.augmented)   dat <- belamkar.augmented    libs(desplot)   desplot(dat, yield ~ col*row|loc, out1=rep, out2=iblock)   # Experiment design showing check placement   dat$gen_check <- factor(dat$gen_check)   desplot(dat, gen_check ~ col*row|loc, out1=rep, out2=iblock,           main=\"belamkar.augmented\")    # Belamkar supplement S3 has R code for analysis   if(require(\"asreml\", quietly=TRUE)){     library(asreml)      # AR1xAR1 model to calculate BLUEs for a single loc     d1 <- droplevels(subset(dat, loc==\"Lincoln\"))     d1$colf <- factor(d1$col)     d1$rowf <- factor(d1$row)     d1$gen <- factor(d1$gen)     d1$gen_check <- factor(d1$gen_check)     d1 <- d1[order(d1$col),]     d1 <- as.data.frame(d1)     m1 <- asreml(fixed=yield ~ gen_check, data=d1,                  random = ~ gen_new:gen,                  residual = ~ar1(colf):ar1v(rowf) )     p1 <- predict(m1, classify=\"gen\")     head(p1$pvals)   } } # }"},{"path":"/reference/besag.bayesian.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of spring barley in United Kingdom — besag.bayesian","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"RCB experiment spring barley United Kingdom","code":""},{"path":"/reference/besag.bayesian.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"data frame 225 observations following 4 variables. col column (also blocking factor) row row yield yield gen variety/genotype","code":""},{"path":"/reference/besag.bayesian.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"RCB design, column one rep. Used permission David Higdon.","code":""},{"path":"/reference/besag.bayesian.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"Besag, J. E., Green, P. J., Higdon, D. Mengersen, K. (1995).   Bayesian computation stochastic systems.   Statistical Science, 10, 3-66.   https://www.jstor.org/stable/2246224","code":""},{"path":"/reference/besag.bayesian.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"Davison, . C. 2003.   Statistical Models.   Cambridge University Press. Pages 534-535.","code":""},{"path":"/reference/besag.bayesian.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of spring barley in United Kingdom — besag.bayesian","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(besag.bayesian)   dat <- besag.bayesian    # Yield values were scaled to unit variance   # var(dat$yield, na.rm=TRUE)   # .999    # Besag Fig 2. Reverse row numbers to match Besag, Davison   dat$rrow <- 76 - dat$row   libs(lattice)   xyplot(yield ~ rrow|col, dat, layout=c(1,3), type='s',          xlab=\"row\", ylab=\"yield\", main=\"besag.bayesian\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml, lucid)      # Use asreml to fit a model with AR1 gradient in rows       dat <- transform(dat, cf=factor(col), rf=factor(rrow))     m1 <- asreml(yield ~ -1 + gen, data=dat, random= ~ rf)     m1 <- update(m1, random= ~ ar1v(rf))     m1 <- update(m1)     m1 <- update(m1)     m1 <- update(m1)     lucid::vc(m1)        # Visualize trends, similar to Besag figure 2.     # Need 'as.vector' because asreml uses a named vector     dat$res <- unname(m1$resid)     dat$geneff <- coef(m1)$fixed[as.numeric(dat$gen)]     dat <- transform(dat, fert=yield-geneff-res)     libs(lattice)     xyplot(geneff ~ rrow|col, dat, layout=c(1,3), type='s',            main=\"besag.bayesian - Variety effects\", ylim=c(5,15 ))     xyplot(fert ~ rrow|col, dat, layout=c(1,3), type='s',            main=\"besag.bayesian - Fertility\", ylim=c(-2,2))     xyplot(res ~ rrow|col, dat, layout=c(1,3), type='s',            main=\"besag.bayesian - Residuals\", ylim=c(-4,4))   } } # }"},{"path":"/reference/besag.beans.html","id":null,"dir":"Reference","previous_headings":"","what":"Competition experiment in beans with height measurements — besag.beans","title":"Competition experiment in beans with height measurements — besag.beans","text":"Competition experiment beans height measurements","code":""},{"path":"/reference/besag.beans.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Competition experiment in beans with height measurements — besag.beans","text":"","code":"data(\"besag.beans\")"},{"path":"/reference/besag.beans.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Competition experiment in beans with height measurements — besag.beans","text":"data frame 152 observations following 6 variables. gen genotype / variety height plot height, cm yield plot yield, g row row / block rep replicate factor col column","code":""},{"path":"/reference/besag.beans.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Competition experiment in beans with height measurements — besag.beans","text":"Field beans regular height grown beside shorter varieties.   block, variety occurred left-side neighbor   right-side neighbor every variety (including ).   Border plots placed ends block.   block 38 adjacent plots.   plot one row, 3 meters long 50 cm spacing rows.   gaps plots.  Spacing plants 6.7 cm.   Four blocks (rows) used, six replicates. Plot yield height recorded. Kempton Lockwood used models adjusted yield according   difference height neighboring plots. Field length: 4 plots * 3m = 12m Field width: 38 plots * 0.5 m = 19m","code":""},{"path":"/reference/besag.beans.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Competition experiment in beans with height measurements — besag.beans","text":"Julian Besag Rob Kempton (1986).   Statistical Analysis Field Experiments Using Neighbouring Plots.   Biometrics, 42, 231-251.  Table 6.   https://doi.org/10.2307/2531047","code":""},{"path":"/reference/besag.beans.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Competition experiment in beans with height measurements — besag.beans","text":"Kempton, RA Lockwood, G. (1984).   Inter-plot competition variety trials field beans (Vicia faba L.).   Journal Agricultural Science, 103, 293–302.","code":""},{"path":"/reference/besag.beans.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Competition experiment in beans with height measurements — besag.beans","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(besag.beans) dat = besag.beans  libs(desplot) desplot(dat, yield ~ col*row,         aspect=12/19, out1=row, out2=rep, num=gen, cex=1, # true aspect         main=\"besag.beans\")   libs(reshape2) # Add a covariate = excess height of neighbors mat <- acast(dat, row~col, value.var='height') mat2 <- matrix(NA, nrow=4, ncol=38) mat2[,2:37] <- (mat[,1:36] + mat[,3:38] - 2*mat[,2:37]) dat2 <- melt(mat2) colnames(dat2) <- c('row','col','cov') dat <- merge(dat, dat2)    # Drop border plots dat <- subset(dat, rep != 'R0')    libs(lattice) # Plot yield vs neighbors height advantage xyplot(yield~cov, data=dat, group=gen,        main=\"besag.beans\",        xlab=\"Mean excess heights of neighbor plots\",        auto.key=list(columns=3))    # Trial mean. mean(dat$yield) # 391 matches Kempton table 3    # Mean excess height of neighbors for each genotype # tapply(dat$cov, dat$gen, mean)/2 # Matches Kempton table 4  # Variety means, matches Kempton table 4 mean yield m1 <- lm(yield ~ -1 + gen, dat) coef(m1)  # Full model used by Kempton, eqn 5.  Not perfectly clear. # Appears to include rep term, perhaps within block dat$blk <- factor(dat$row) dat$blkrep <- factor(paste(dat$blk, dat$rep)) m2 <- lm(yield ~ -1 + gen + blkrep + cov, data=dat) coef(m2) # slope 'cov' = -.72, while Kempton says -.79  } # }"},{"path":"/reference/besag.checks.html","id":null,"dir":"Reference","previous_headings":"","what":"Check variety yields in winter wheat. — besag.checks","title":"Check variety yields in winter wheat. — besag.checks","text":"Check variety yields winter wheat.","code":""},{"path":"/reference/besag.checks.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Check variety yields in winter wheat. — besag.checks","text":"","code":"data(\"besag.checks\")"},{"path":"/reference/besag.checks.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Check variety yields in winter wheat. — besag.checks","text":"data frame 364 observations following 4 variables. yield yield, units 10g row row col column gen genotype/variety","code":""},{"path":"/reference/besag.checks.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Check variety yields in winter wheat. — besag.checks","text":"data used Besag show spatial variation field   experiment, Besag use data analysis. Yields winter wheat varieties (Bounty Huntsman) Plant   Breeding Institute, Cambridge, 1980. data 'checks'   genotypes larger variety trial. column checks, five columns new varieties.  Repeat. Plot dimensions approx 1.5 4.5 metres Field length: 52 rows * 4.5 m = 234 m Field width: 31 columns * 1.5 m = 46.5 Electronic version data supplied David Clifford.","code":""},{"path":"/reference/besag.checks.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Check variety yields in winter wheat. — besag.checks","text":"Besag, J.E. & Kempton R.. (1986).   Statistical analysis field experiments using neighbouring plots.   Biometrics, 42, 231-251.   https://doi.org/10.2307/2531047","code":""},{"path":"/reference/besag.checks.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Check variety yields in winter wheat. — besag.checks","text":"Kempton, Statistical Methods Plant Variety Evaluation, page 91–92","code":""},{"path":"/reference/besag.checks.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Check variety yields in winter wheat. — besag.checks","text":"","code":"if (FALSE) { # \\dontrun{ library(agridat) data(besag.checks) dat <- besag.checks   libs(desplot)   desplot(dat, yield~col*row,           num=gen, aspect=234/46.5, # true aspect           main=\"besag.checks\") } # }"},{"path":"/reference/besag.elbatan.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"RCB experiment wheat, 50 varieties 3 blocks strong   spatial trend.","code":""},{"path":"/reference/besag.elbatan.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"data frame 150 observations following 4 variables. yield yield wheat gen genotype, factor 50 levels col column/block row row","code":""},{"path":"/reference/besag.elbatan.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"RCB experiment wheat El Batan, Mexico.  three   single-column replicates 50 varieties replicate. Plot dimensions given Besag. Data retrieved   https://web.archive.org/web/19991008143232/www.stat.duke.edu/~higdon/trials/elbatan.dat Used permission David Higdon.","code":""},{"path":"/reference/besag.elbatan.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"Julian Besag D Higdon, 1999.   Bayesian Analysis Agricultural Field Experiments,   Journal Royal Statistical Society: Series B,61, 691–746.   Table 1.   https://doi.org/10.1111/1467-9868.00201","code":""},{"path":"/reference/besag.elbatan.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"Wilkinson 1984. Besag & Seheult 1989.","code":""},{"path":"/reference/besag.elbatan.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of wheat, 50 varieties in 3 blocks with strong spatial trend. — besag.elbatan","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(besag.elbatan) dat <- besag.elbatan  libs(desplot) desplot(dat, yield~col*row,         num=gen, # aspect unknown         main=\"besag.elbatan - wheat yields\")   # Besag figure 1 library(lattice) xyplot(yield~row|col, dat, type=c('l'),        layout=c(1,3), main=\"besag.elbatan wheat yields\")   # RCB m1 <- lm(yield ~ 0 + gen + factor(col), dat) p1 <- coef(m1)[1:50]  # Formerly used gam package, but as of R 3.1, Rcmd check --as-cran # is complaining # Calls: plot.gam ... model.matrix.gam -> predict -> predict.gam -> array # but it works perfectly in interactive mode !!! # Remove the FALSE to run the code below if(is.element(\"gam\", search())) detach(package:gam) libs(mgcv) m2 <- mgcv::gam(yield ~ -1 + gen + factor(col) + s(row), data=dat) plot(m2, residuals=TRUE, main=\"besag.elbatan\") pred <- cbind(dat, predict(m2, dat, type=\"terms\")) # Need to correct for the average loess effect, which is like # an overall intercept term. adjlo <-  mean(pred$\"s(row)\") p2 <- coef(m2)[1:50] + adjlo  # Compare estimates lims <- range(c(p1,p2)) plot(p1, p2, xlab=\"RCB prediction\",      ylab=\"RCB with smooth trend (predicted)\",      type='n', xlim=lims, ylim=lims,      main=\"besag.elbatan\") text(p1, p2, 1:50, cex=.5) abline(0,1,col=\"gray\")  } # }"},{"path":"/reference/besag.endive.html","id":null,"dir":"Reference","previous_headings":"","what":"Presence of footroot disease in an endive field — besag.endive","title":"Presence of footroot disease in an endive field — besag.endive","text":"Presence footroot disease endive field","code":""},{"path":"/reference/besag.endive.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Presence of footroot disease in an endive field — besag.endive","text":"data frame 2506 observations following 3 variables. col column row row disease plant diseased, Y=yes,N=","code":""},{"path":"/reference/besag.endive.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Presence of footroot disease in an endive field — besag.endive","text":"field endives, plant footrot, ?  Data   binary lattice 14 x 179 plants. Modeled autologistic distribution. assume endives single genotype. Besag (1978) may data taken 4 time points.  data   extracted Friel Pettitt.  clear , ,   time point used. Friel give dimensions. Besag available.","code":""},{"path":"/reference/besag.endive.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Presence of footroot disease in an endive field — besag.endive","text":"J Besag (1978).   Methods Statistical Analysis Spatial Data.   Bulletin International Statistical Institute, 47, 77-92.","code":""},{"path":"/reference/besag.endive.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Presence of footroot disease in an endive field — besag.endive","text":"N Friel & . N Pettitt (2004). Likelihood Estimation Inference   Autologistic Model.   Journal Computational Graphical Statistics, 13:1, 232-246.   https://doi.org/10.1198/1061860043029","code":""},{"path":"/reference/besag.endive.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Presence of footroot disease in an endive field — besag.endive","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(besag.endive)   dat <- besag.endive    # Incidence map.  Figure 2 of Friel and Pettitt   libs(desplot)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   desplot(dat, disease~col*row,           col.regions=grays(2),           aspect = 0.5, # aspect unknown           main=\"besag.endive - Disease incidence\")         # Besag (2000) \"An Introduction to Markov Chain Monte Carlo\" suggested   # that the autologistic model is not a very good fit for this data.   # We try it anyway.  No idea if this is correct or how to interpret...      libs(ngspatial)   A = adjacency.matrix(179,14)   X = cbind(x=dat$col, y=dat$row)   Z = as.numeric(dat$disease==\"Y\")   m1 <- autologistic(Z ~ 0+X, A=A, control=list(confint=\"none\"))      summary(m1)   ## Coefficients:   ##      Estimate Lower Upper MCSE   ## Xx  -0.007824    NA    NA   NA   ## Xy  -0.144800    NA    NA   NA   ## eta  0.806200    NA    NA   NA       if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          # Now try an AR1xAR1 model.     dat2 <- transform(dat, xf=factor(col), yf=factor(row),                       pres=as.numeric(disease==\"Y\"))          m2 <- asreml(pres ~ 1, data=dat2,                  resid = ~ar1(xf):ar1(yf))     # The 0/1 response is arbitrary, but there is some suggestion     # of auto-correlation in the x (.17) and y (.10) directions,     # suggesting the pattern is more 'patchy' than just random noise,     # but is it meaningful?          lucid::vc(m2)     ##       effect component std.error z.ratio bound      ##     xf:yf(R)   0.1301   0.003798    34       P   0     ## xf:yf!xf!cor   0.1699   0.01942      8.7     U   0     ## xf:yf!yf!cor   0.09842  0.02038      4.8     U   0   }  } # }"},{"path":"/reference/besag.met.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn, incomplete-block design — besag.met","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"Multi-environment trial corn, incomplete-block designlocation.","code":""},{"path":"/reference/besag.met.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"data frame 1152 observations following 7 variables. county county row row col column rep rep block incomplete block yield yield gen genotype, 1-64","code":""},{"path":"/reference/besag.met.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"Multi-environment trial 64 corn hybrids six counties North   Carolina.  location 3 replicates incomplete-block   design 18x11 lattice plots whose length--width ratio   2:1. Note: original data, county 6 missing plots.    data rows missing plot uses   county/block/rep fill-row, sets genotype G01,   sets yield missing.  missing values added   data asreml easily AR1xAR1 analysis using   rectangular regions. location/panel : Field length: 18 rows * 2 units = 36 units. Field width: 11 plots * 1 unit = 11 units. Retrieved   https://web.archive.org/web/19990505223413/www.stat.duke.edu/~higdon/trials/nc.dat Used permission David Higdon.","code":""},{"path":"/reference/besag.met.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"Julian Besag D Higdon, 1999.   Bayesian Analysis Agricultural Field Experiments,   Journal Royal Statistical Society: Series B, 61, 691–746.   Table 1.   https://doi.org/10.1111/1467-9868.00201","code":""},{"path":"/reference/besag.met.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn, incomplete-block design — besag.met","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(besag.met)   dat <- besag.met    libs(desplot)   desplot(dat, yield ~ col*row|county,           aspect=36/11, # true aspect           out1=rep, out2=block,           main=\"besag.met\")     # Average reps   datm <- aggregate(yield ~ county + gen, data=dat, FUN=mean)      # Sections below fit heteroskedastic variance models (variance for each variety)   # asreml takes 1 second, lme 73 seconds, SAS PROC MIXED 30 minutes      # lme   # libs(nlme)   # m1l <- lme(yield ~ -1 + gen, data=datm, random=~1|county,   #            weights = varIdent(form=~ 1|gen))   # m1l$sigma^2 * c(1, coef(m1l$modelStruct$varStruct, unc = FALSE))^2   ##           G02    G03    G04    G05    G06    G07    G08   ##  91.90 210.75  63.03 112.05  28.39 237.36  72.72  42.97   ## ... etc ...      if(require(\"asreml\", quietly=TRUE)) {    libs(asreml, lucid)     # Average reps    datm <- aggregate(yield ~ county + gen, data=dat, FUN=mean)    #  asreml Using 'rcov' ALWAYS requires sorting the data    datm <- datm[order(datm$gen),]        m1 <- asreml(yield ~ gen, data=datm,                 random = ~ county,                 residual = ~ dsum( ~ units|gen))    vc(m1)[1:7,]    ##      effect component std.error z.ratio bound     ##    county   1324       836.1      1.6     P 0.2    ## gen_G01!R     91.98     58.91     1.6     P 0.1    ## gen_G02!R    210.6     133.6      1.6     P 0.1    ## gen_G03!R     63.06     40.58     1.6     P 0.1    ## gen_G04!R    112.1      71.59     1.6     P 0.1    ## gen_G05!R     28.35     18.57     1.5     P 0.2    ## gen_G06!R    237.4     150.8      1.6     P 0         # We get the same results from asreml & lme    # plot(m1$vparameters[-1],    #      m1l$sigma^2 * c(1, coef(m1l$modelStruct$varStruct, unc = FALSE))^2)        # The following example shows how to construct a GxE biplot    # from the FA2 model.            dat <- besag.met    dat <- transform(dat, xf=factor(col), yf=factor(row))    dat <- dat[order(dat$county, dat$xf, dat$yf), ]        # First, AR1xAR1    m1 <- asreml(yield ~ county, data=dat,                 random = ~ gen:county,                 residual = ~ dsum( ~ ar1(xf):ar1(yf)|county))    # Add FA1    m2 <- update(m1, random=~gen:fa(county,1)) # rotate.FA=FALSE    # FA2    m3 <- update(m2, random=~gen:fa(county,2))    asreml.options(extra=50)    m3 <- update(m3, maxit=50)    asreml.options(extra=0)        # Use the loadings to make a biplot    vars <- vc(m3)    psi <- vars[grepl(\"!var$\", vars$effect), \"component\"]    la1 <- vars[grepl(\"!fa1$\", vars$effect), \"component\"]    la2 <- vars[grepl(\"!fa2$\", vars$effect), \"component\"]    mat <- as.matrix(data.frame(psi, la1, la2))    # I tried using rotate.fa=FALSE, but it did not seem to    # give orthogonal vectors.  Rotate by hand.    rot <- svd(mat[,-1])$v # rotation matrix    lam <- mat[,-1]     colnames(lam) <- c(\"load1\", \"load2\")        co3 <- coef(m3)$random # Scores are the GxE coefficients    ix1 <- grepl(\"_Comp1$\", rownames(co3))    ix2 <- grepl(\"_Comp2$\", rownames(co3))    sco <- matrix(c(co3[ix1], co3[ix2]), ncol=2, byrow=FALSE)    sco <- sco     dimnames(sco) <- list(levels(dat$gen) , c('load1','load2'))    rownames(lam) <- levels(dat$county)    sco[,1:2] <- -1 * sco[,1:2]    lam[,1:2] <- -1 * lam[,1:2]    biplot(sco, lam, cex=.5, main=\"FA2 coefficient biplot (asreml)\")    # G variance matrix    gvar <- lam        # Now get predictions and make an ordinary biplot    p3 <- predict(m3, data=dat, classify=\"county:gen\")    p3 <- p3$pvals    libs(\"gge\")      bi3 <- gge(p3, predicted.value ~ gen*county, scale=FALSE)    if(interactive()) dev.new()    # Very similar to the coefficient biplot    biplot(bi3, stand=FALSE, main=\"SVD biplot of FA2 predictions\")   }    } # }"},{"path":"/reference/besag.triticale.html","id":null,"dir":"Reference","previous_headings":"","what":"Four-way factorial agronomic experiment in triticale — besag.triticale","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"Four-way factorial agronomic experiment triticale","code":""},{"path":"/reference/besag.triticale.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"","code":"data(\"besag.triticale\")"},{"path":"/reference/besag.triticale.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"data frame 54 observations following 7 variables. yield yield, g/m^2 row row col column gen genotype / variety, 3 levels rate seeding rate, kg/ha nitro nitrogen rate, kw/ha regulator growth regulator, 3 levels","code":""},{"path":"/reference/besag.triticale.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"Experiment conducted factorial yields triticale.  Fully   randomized.  Plots 1.5m x 5.5m, orientation clear. Besag Kempton show accounting neighbors changes   non-significant genotype differences significant differences.","code":""},{"path":"/reference/besag.triticale.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"Julian Besag Rob Kempton (1986).   Statistical Analysis Field Experiments Using Neighbouring Plots.   Biometrics, 42, 231-251. Table 2.   https://doi.org/10.2307/2531047","code":""},{"path":"/reference/besag.triticale.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"None.","code":""},{"path":"/reference/besag.triticale.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Four-way factorial agronomic experiment in triticale — besag.triticale","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(besag.triticale)   dat <- besag.triticale   dat <- transform(dat, rate=factor(rate), nitro=factor(nitro))   dat <- transform(dat, xf=factor(col), yf=factor(row))    libs(desplot)   desplot(dat, yield ~ col*row,           # aspect unknown           main=\"besag.triticale\")    # Besag & Kempton are not perfectly clear on the model, but   # indicate that there was no evidence of any two-way interactions.   # A reduced, main-effect model had genotype effects that were   # \"close to significant\" at the five percent level.   # The model below has p-value of gen at .04, so must be slightly   # different than their model.   m2 <- lm(yield ~ gen + rate + nitro + regulator + yf, data=dat)   anova(m2)    # Similar, but not exact, to Besag figure 5   dat$res <- resid(m2)   libs(lattice)   xyplot(res ~ col|as.character(row), data=dat,          as.table=TRUE, type=\"s\", layout=c(1,3),          main=\"besag.triticale\")      if(require(\"asreml\", quietly=TRUE)) {     libs(asreml)      # Besag uses an adjustment based on neighboring plots.     # This analysis fits the standard AR1xAR1 residual model          dat <- dat[order(dat$xf, dat$yf), ]     m3 <- asreml(yield ~ gen + rate + nitro + regulator +                    gen:rate + gen:nitro + gen:regulator +                    rate:nitro + rate:regulator +                    nitro:regulator + yf, data=dat,                  resid = ~ ar1(xf):ar1(yf))     wald(m3) # Strongly significant gen, rate, regulator     ##                 Df Sum of Sq Wald statistic Pr(Chisq)         ## (Intercept)      1   1288255        103.971 < 2.2e-16 ***     ## gen              2    903262         72.899 < 2.2e-16 ***     ## rate             1    104774          8.456  0.003638 **      ## nitro            1       282          0.023  0.880139         ## regulator        2    231403         18.676 8.802e-05 ***     ## yf               2      3788          0.306  0.858263         ## gen:rate         2      1364          0.110  0.946461         ## gen:nitro        2     30822          2.488  0.288289         ## gen:regulator    4     37269          3.008  0.556507         ## rate:nitro       1      1488          0.120  0.728954         ## rate:regulator   2     49296          3.979  0.136795         ## nitro:regulator  2     41019          3.311  0.191042         ## residual (MS)          12391                                }    } # }"},{"path":"/reference/blackman.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Multi-environment trial wheat, conventional semi-dwarf   varieties, 7 locs low/high fertilizer levels.","code":""},{"path":"/reference/blackman.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"data frame 168 observations following 5 variables. gen genotype loc location nitro nitrogen fertilizer, low/high yield yield (g/m^2) type type factor, conventional/semi-dwarf","code":""},{"path":"/reference/blackman.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Conducted U.K. 1975.  loc three reps, two nitrogen   treatments. Locations Begbroke, Boxworth, Crafts Hill, Earith, Edinburgh,   Fowlmere, Trumpington. two highest-yielding locations, Earith Edinburgh, yield   _lower_ high-nitrogen treatment.  Blackman et al. say \"  seems probable effects development structure crop   responsible reductions yield high nitrogen\".","code":""},{"path":"/reference/blackman.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Blackman, JA Bingham, J. Davidson, JL (1978).   Response semi-dwarf conventional winter wheat varieties   application nitrogen fertilizer.   Journal Agricultural Science, 90, 543–550.   https://doi.org/10.1017/S0021859600056070","code":""},{"path":"/reference/blackman.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"Gower, J. Lubbe, S.G. Gardner, S. Le Roux, N. (2011).   Understanding Biplots, Wiley.","code":""},{"path":"/reference/blackman.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat, conventional and semi-dwarf varieties — blackman.wheat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(blackman.wheat) dat <- blackman.wheat  libs(lattice)  # Semi-dwarf generally higher yielding than conventional # bwplot(yield~type|loc,dat, main=\"blackman.wheat\")  # Peculiar interaction--Ear/Edn locs have reverse nitro response dotplot(gen~yield|loc, dat, group=nitro, auto.key=TRUE,         main=\"blackman.wheat: yield for low/high nitrogen\")  # Height data from table 6 of Blackman.  Height at Trumpington loc. # Shorter varieties have higher yields, greater response to nitro. heights <- data.frame(gen=c(\"Cap\", \"Dur\", \"Fun\", \"Hob\", \"Hun\", \"Kin\",                             \"Ran\", \"Spo\", \"T64\", \"T68\",\"T95\", \"Tem\"),                       ht=c(101,76,76,80,98,88,98,81,86,73,78,93)) dat$height <- heights$ht[match(dat$gen, heights$gen)] xyplot(yield~height|loc,dat,group=nitro,type=c('p','r'),        main=\"blackman.wheat\",        subset=loc==\"Tru\", auto.key=TRUE)   libs(reshape2) # AMMI-style biplot Fig 6.4 of Gower 2011 dat$env <- factor(paste(dat$loc,dat$nitro,sep=\"-\")) datm <- acast(dat, gen~env, value.var='yield') datm <- sweep(datm, 1, rowMeans(datm)) datm <- sweep(datm, 2, colMeans(datm)) biplot(prcomp(datm), main=\"blackman.wheat AMMI-style biplot\")   } # }"},{"path":"/reference/bliss.borers.html","id":null,"dir":"Reference","previous_headings":"","what":"Corn borer infestation under four treatments — bliss.borers","title":"Corn borer infestation under four treatments — bliss.borers","text":"Corn borer infestation four treatments","code":""},{"path":"/reference/bliss.borers.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Corn borer infestation under four treatments — bliss.borers","text":"data frame 48 observations following 3 variables. borers number borers per hill treat treatment factor freq frequency borer count","code":""},{"path":"/reference/bliss.borers.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Corn borer infestation under four treatments — bliss.borers","text":"Four treatments control corn borers.  Treatment 1 control. 15 blocks, treatment, 8 hills plants examined,   number corn borers present recorded.  data   aggregated across blocks. Bliss mentions level infestation varied significantly   blocks.","code":""},{"path":"/reference/bliss.borers.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Corn borer infestation under four treatments — bliss.borers","text":"C. Bliss R. . Fisher. (1953).   Fitting Negative Binomial Distribution Biological Data.   Biometrics, 9, 176–200.  Table 3.   https://doi.org/10.2307/3001850 Geoffrey Beall. 1940. Fit Significance Contagious   Distributions Applied Observations Larval Insects.   Ecology, 21, 460-474.  Page 463.   https://doi.org/10.2307/1930285","code":""},{"path":"/reference/bliss.borers.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Corn borer infestation under four treatments — bliss.borers","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(bliss.borers) dat <- bliss.borers  # Add 0 frequencies dat0 <- expand.grid(borers=0:26, treat=c('T1','T2','T3','T4')) dat0 <- merge(dat0,dat, all=TRUE) dat0$freq[is.na(dat0$freq)] <- 0  # Expand to individual (non-aggregated) counts for each hill dd <- data.frame(borers = rep(dat0$borers, times=dat0$freq),                  treat = rep(dat0$treat, times=dat0$freq))  libs(lattice) histogram(~borers|treat, dd, type='count', breaks=0:27-.5,           layout=c(1,4), main=\"bliss.borers\", xlab=\"Borers per hill\")   libs(MASS)   m1 <- glm.nb(borers~0+treat, data=dd)   # Bliss, table 3, presents treatment means, which are matched by:   exp(coef(m1)) # 4.033333 3.166667 1.483333 1.508333   # Bliss gives treatment values k = c(1.532,1.764,1.333,1.190).   # The mean of these is 1.45, similar to this across-treatment estimate   m1$theta # 1.47   # Plot observed and expected distributions for treatment 2 libs(latticeExtra)   xx <- 0:26   yy <- dnbinom(0:26, mu=3.17, size=1.47)*120 # estimates are from glm.nb   histogram(~borers, dd, type='count', subset=treat=='T2',             main=\"bliss.borers - trt T2 observed and expected\",             breaks=0:27-.5) +               xyplot(yy~xx, col='navy', type='b')   # \"Poissonness\"-type plot libs(vcd)   dat2 <- droplevels(subset(dat, treat=='T2'))   vcd::distplot(dat2$borers, type = \"nbinomial\",            main=\"bliss.borers neg binomialness plot\")   # Better way is a rootogram   g1 <- vcd::goodfit(dat2$borers, \"nbinomial\")   plot(g1, main=\"bliss.borers - Treatment 2\")  } # }"},{"path":"/reference/bond.diallel.html","id":null,"dir":"Reference","previous_headings":"","what":"Diallel cross of winter beans — bond.diallel","title":"Diallel cross of winter beans — bond.diallel","text":"Diallel cross winter beans","code":""},{"path":"/reference/bond.diallel.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diallel cross of winter beans — bond.diallel","text":"data frame 36 observations following 3 variables. female female parent male male parent yield yield, grams/plot stems stems per plot nodes podded nodes per stem pods pods per podded node seeds seeds per pod weight weight (g) per 100 seeds height height (cm) April width width (cm) April flower mean flowering date May","code":""},{"path":"/reference/bond.diallel.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diallel cross of winter beans — bond.diallel","text":"Yield grams/plot full diallel cross 6 inbred lines   winter beans.  Values means two years.","code":""},{"path":"/reference/bond.diallel.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diallel cross of winter beans — bond.diallel","text":"D. . Bond (1966). Yield components yield diallel crosses   inbred lines winter beans (Viciafaba).   Journal Agricultural Science, 67, 325–336.   https://doi.org/10.1017/S0021859600017329","code":""},{"path":"/reference/bond.diallel.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Diallel cross of winter beans — bond.diallel","text":"Peter John, Statistical Design Analysis Experiments, p. 85.","code":""},{"path":"/reference/bond.diallel.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diallel cross of winter beans — bond.diallel","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(bond.diallel)   dat <- bond.diallel      # Because these data are means, we will not be able to reproduce   # the anova table in Bond. More useful as a multivariate example.    libs(corrgram)   corrgram(dat[ , 3:11], main=\"bond.diallel\",            lower=panel.pts)    # Multivariate example from sommer package   corrgram(dat[,c(\"stems\",\"pods\",\"seeds\")],            lower=panel.pts, upper=panel.conf, main=\"bond.diallel\")      libs(sommer)              m1 <- mmer(cbind(stems,pods,seeds) ~ 1,              random= ~ vs(female)+vs(male),              rcov= ~ vs(units),              dat)    #### genetic variance covariance   cov2cor(m1$sigma$`u:female`)   cov2cor(m1$sigma$`u:male`)   cov2cor(m1$sigma$`u:units`)  } # }"},{"path":"/reference/bose.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"Uniformity trials barley, wheat, lentils India 1930-1932.","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"","code":"data(\"bose.multi.uniformity\")"},{"path":"/reference/bose.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"data frame 1170 observations following 5 variables. year year crop crop row row ordinate col column ordinate yield yield per plot grams","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"field 1/4 acre sown three consecutive years (beginning   1929-1930) barley, wheat, lentil. harvest, borders 3 feet east west 6 feet north   south removed. field divided plots four feet square,   harvested separately, measured grams. Fertility contours field somewhat similar across years,   correlation values across years 0.45, 0.48, 0.21. Field width: 15 plots * 4 feet = 60 feet. Field length: 26 plots * 4 feet = 104 feet. Conclusions: \"experimental field may sensibly uniform one crop   one season may another crop different   season\" p. 592.","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"Bose, R. D. (1935).   soil heterogeneity trials Pusa size shape experimental plots.   Ind. J. Agric. Sci., 5, 579-608. Table 1 (p. 585), Table 4 (p. 589), Table 5 (p. 590).   https://archive.org/details/.ernet.dli.2015.271739","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"Shaw (1935).   Handbook Statistics Use Plant-Breeding Agricultural Problems, p. 149-170.   https://krishikosh.egranth.ac./handle/1/21153","code":""},{"path":"/reference/bose.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of barley, wheat, lentils — bose.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(bose.multi.uniformity)   dat <- bose.multi.uniformity    # match sum at bottom of Bose tables 1, 4, 5   # library(dplyr)   # dat     libs(desplot, dplyr)   # Calculate percent of mean yield for each year   dat <- group_by(dat, year)   dat <- mutate(dat, pctyld = (yield-mean(yield))/mean(yield))    dat <- ungroup(dat)   dat <- mutate(dat, year=as.character(year))   # Bose smoothed the data by averaging 2x3 plots together before drawing   # contour maps.  Heatmaps of raw data have similar structure to Bose Fig 1.   desplot(dat, pctyld ~ col*row|year,           tick=TRUE, flip=TRUE, aspect=(26)/(15),           main=\"bose.multi.* - Percent of mean yield\")      # contourplot() results need to be mentally flipped upside down   # contourplot(pctyld ~ col*row|year, dat,   #   region=TRUE, as.table=TRUE, aspect=26/15)  } # }"},{"path":"/reference/box.cork.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight of cork samples on four sides of trees — box.cork","title":"Weight of cork samples on four sides of trees — box.cork","text":"cork data gives weights cork borings trunk 28 trees   north (N), east (E), south (S) west (W) directions.","code":""},{"path":"/reference/box.cork.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight of cork samples on four sides of trees — box.cork","text":"Data frame 28 observations following 5 variables. tree tree number dir direction N,E,S,W y weight cork deposit (centigrams), north direction","code":""},{"path":"/reference/box.cork.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight of cork samples on four sides of trees — box.cork","text":"C.R. Rao (1948).   Tests significance multivariate analysis.   Biometrika, 35, 58-79.   https://doi.org/10.2307/2332629","code":""},{"path":"/reference/box.cork.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight of cork samples on four sides of trees — box.cork","text":"K.V. Mardia, J.T. Kent J.M. Bibby (1979) Multivariate Analysis,   Academic Press. Russell D Wolfinger, (1996).   Heterogeneous Variance: Covariance Structures Repeated Measures.   Journal Agricultural, Biological, Environmental     Statistics, 1, 205-230.","code":""},{"path":"/reference/box.cork.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight of cork samples on four sides of trees — box.cork","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(box.cork)   dat <- box.cork    libs(reshape2, lattice)   dat2 <- acast(dat, tree ~ dir, value.var='y')   splom(dat2, pscales=3,         prepanel.limits = function(x) c(25,100),         main=\"box.cork\", xlab=\"Cork yield on side of tree\",         panel=function(x,y,...){           panel.splom(x,y,...)           panel.abline(0,1,col=\"gray80\")         })     ## Radial star plot, each tree is one line   libs(plotrix)   libs(reshape2)   dat2 <- acast(dat, tree ~ dir, value.var='y')   radial.plot(dat2, start=pi/2, rp.type='p', clockwise=TRUE,               radial.lim=c(0,100), main=\"box.cork\",               lwd=2, labels=c('North','East','South','West'),               line.col=rep(c(\"royalblue\",\"red\",\"#009900\",\"dark orange\",                              \"#999999\",\"#a6761d\",\"deep pink\"),                            length=nrow(dat2)))    if(require(\"asreml\", quietly=TRUE)) {       libs(asreml, lucid)          # Unstructured covariance     dat$dir <- factor(dat$dir)     dat$tree <- factor(dat$tree)       dat <- dat[order(dat$tree, dat$dir), ]          # Unstructured covariance matrix     m1 <- asreml(y~dir, data=dat, residual = ~ tree:us(dir))          lucid::vc(m1)          # Note: 'rcor' is a personal function to extract the correlations     # into a matrix format     # round(kw::rcor(m1)$dir, 2)     #        E      N      S      W     # E 219.93 223.75 229.06 171.37     # N 223.75 290.41 288.44 226.27     # S 229.06 288.44 350.00 259.54     # W 171.37 226.27 259.54 226.00          # Note: Wolfinger used a common diagonal variance          # Factor Analytic with different specific variances     # fixme: does not work with asreml4     # m2 <- update(m1, residual = ~tree:facv(dir,1))     # round(kw::rcor(m2)$dir, 2)     #       E       N      S      W     # E 219.94 209.46 232.85 182.27     # N 209.46 290.41 291.82 228.43     # S 232.85 291.82 349.99 253.94     # W 182.27 228.43 253.94 225.99   }    } # }"},{"path":"/reference/bradley.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"Uniformity trial 4 crops land Trinidad.","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"","code":"data(\"bradley.multi.uniformity\")"},{"path":"/reference/bradley.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"data frame 440 observations following 5 variables. row row col column yield yield, pounds per plot season season crop crop","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"Experiments conducted Trinidad. Plots marked May 1939 Fields 1, 2, 3. Prior 1939   difficult obtain significant results land. Plots 1/40 acre , 33 feet square. Discard blocks (  rows) 7 feet plots (columns) 4 feet.   roadways, gap 14 feet blocks 10 11 gap 10   feet plots E/F (call columns 5/6). Data collected 4 crops. Two crops poor germination   omitted. Field width: 10 plots * 33 feet + 8 gaps * 4 feet + 1 gap * 10 = 372 feet Field length: 11 blocks (plots) * 33 feet + 9 gaps * 7 feet + 1 gap * 14 feet = 440 feet Crop 1. Woolly Pyrol. Crop cut flowering weighed pounds.   Note, woolly pyrol appears bean also called black gram,   phaseolus mungo. Crop 2. Woolly Pyrol. Crop cut flowering weighed pounds. Crop 3. Maize. Net weight cobs pounds. Source document also   number cobs. Crop 4. Yams. Weights pounds. Source document weight 1/4   pound, rounded nearest pound. (Half pounds   rounded nearest even pound.) Source document also number   yams. Notes Bradley. edges field tended slightly higher yielding. Thought   due heavier cultivation edges recieve (p. 18). plot row 9, col 7 (9G Bradley) higher yielding   neighbors, thought site saman tree dug burned   field plotted. Bits charcoal still soil. Bradley also examined soil samples selected plots looked   nutrients, moisture, texture, etc. selected plots 4   high-yielding plots 4 low-yielding plots.  Little difference   observed. Unexpectedly, yams gave higher yield plots   compaction.","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"P. L. Bradley (1941).   study variation productivity number fixed plots field 2.   Dissertation: University West Indies. Appendix 1a, 1b, 1c, 1d.   https://uwispace.sta.uwi.edu/items/e874561d-52e5-4e39-8416-ff8c1756049c   https://hdl.handle.net/2139/41259 data repeated :   C. E. Wilson.   Study plots laid field II view obtaining   plot-fertility data use future experiments plots,   season 1940-41.   Dissertation: University West Indies.  Page 36-39.   https://uwispace.sta.uwi.edu/dspace/handle/2139/43658","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"None","code":""},{"path":"/reference/bradley.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of 4 crops on the same land — bradley.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(bradley.multi.uniformity) dat <- bradley.multi.uniformity  # figures similar to Bradley, pages 11-15 libs(desplot) desplot(dat, yield ~ col*row, subset=season==1,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 1, woolly pyrol\")  desplot(dat, yield ~ col*row, subset=season==2,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 2, woolly pyrol\")  desplot(dat, yield ~ col*row, subset=season==3,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 3, maize\")   desplot(dat, yield ~ col*row, subset=season==4,         flip=TRUE, aspect=433/366, # true aspect (omits roadways)         main=\"bradley.multi.uniformity - season 4, yams\")  dat1 <- subset(bradley.multi.uniformity, season==1) dat2 <- subset(bradley.multi.uniformity, season==2) dat3 <- subset(bradley.multi.uniformity, season==3) dat4 <- subset(bradley.multi.uniformity, season==4)   # to combine plots across seasons, each yield value was converted to percent   # of maximum yield in that season. Same as Bradley, page 17.   dat1$percent <- dat1$yield / max(dat1$yield) * 100   dat2$percent <- dat2$yield / max(dat2$yield) * 100   dat3$percent <- dat3$yield / max(dat3$yield) * 100   dat4$percent <- dat4$yield / max(dat4$yield) * 100   # make sure data is in same order, then combine   dat1 <- dat1[order(dat1$col, dat1$row),]   dat2 <- dat2[order(dat2$col, dat2$row),]   dat3 <- dat3[order(dat3$col, dat3$row),]   dat4 <- dat4[order(dat4$col, dat4$row),]   dat14 <- dat1[,c('row','col')]   dat14$fertility <- dat1$percent + dat2$percent + dat3$percent + dat4$percent    libs(desplot)   desplot(dat14, fertility ~ col*row,           tick=TRUE, flip=TRUE, aspect=433/366, # true aspect (omits roadways)           main=\"bradley.multi.uniformity - fertility\")  } # }"},{"path":"/reference/brandle.rape.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rape in Manitoba — brandle.rape","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"Rape seed yields 5 genotypes, 3 years, 9 locations.","code":""},{"path":"/reference/brandle.rape.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"data frame 135 observations following 4 variables. gen genotype year year, numeric loc location, 9 levels yield yield, kg/ha","code":""},{"path":"/reference/brandle.rape.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"yields mean 4 reps. Note, table 2 Brandle, value Triton 1985 Bagot   shown 2355, 2555 match means reported   paper. Used permission P. McVetty.","code":""},{"path":"/reference/brandle.rape.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"Brandle, JE McVetty, PBE. (1988).   Genotype x environment interaction stability analysis seed   yield oilseed rape grown Manitoba.   Canadian Journal Plant Science, 68, 381–388.","code":""},{"path":"/reference/brandle.rape.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rape in Manitoba — brandle.rape","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(brandle.rape) dat <- brandle.rape  libs(lattice) dotplot(gen~yield|loc, dat, group=year, auto.key=list(columns=3),         main=\"brandle.rape, yields per location\", ylab=\"Genotype\")  # Matches table 4 of Brandle # round(tapply(dat$yield, dat$gen, mean),0)  # Brandle reports variance components: # sigma^2_gl: 9369  gy: 14027 g: 72632 resid: 150000 # Brandle analyzed rep-level data, so the residual variance is different. # The other components are matched by the following analysis.  libs(lme4) libs(lucid) dat$year <- factor(dat$year) m1 <- lmer(yield ~ year + loc + year:loc + (1|gen) +              (1|gen:loc) + (1|gen:year), data=dat) vc(m1) ##      grp        var1 var2  vcov  sdcor ##  gen:loc (Intercept) <NA>  9363  96.76 ## gen:year (Intercept) <NA> 14030 118.4 ##      gen (Intercept) <NA> 72630 269.5 ## Residual        <NA> <NA> 75010 273.9    } # }"},{"path":"/reference/brandt.switchback.html","id":null,"dir":"Reference","previous_headings":"","what":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"Switchback experiment dairy cattle, milk yield two treatments","code":""},{"path":"/reference/brandt.switchback.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"","code":"data(\"brandt.switchback\")"},{"path":"/reference/brandt.switchback.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"data frame 30 observations following 5 variables. group group: ,B cow cow, 10 levels trt treatment, 2 levels period period, 3 levels yield milk yield, pounds","code":""},{"path":"/reference/brandt.switchback.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"experiment, 10 cows selected Iowa State College   Holstein-Friesian herd divided two equal groups. Care   taken groups nearly equal possible regard   milk production, stage gestation, body weight, condition   age. cows given 10 pounds timothy hay 30 pounds   corn silage daily fed different grain mixtures. Treatment   T1, , consisted feeding grain mixture 1 part corn   cob meal 1 part ground oats, treatment T2 consisted   feeding grain mixture 4 parts corn cob meal, 4 parts   ground oats 3 parts gluten feed. three treatment periods   covered 105 days – three periods 35 days . yields   first 7 days period considered   possible effect transition one treatment .   data, together sums differences aid calculations   incidental testing, given table 2. seems safe conclude inclusion gluten feed   grain mixture fed timothy hay ration Holstein-Friesian cows   increased production milk. average increase 21.7 pounds   per cow 28-day period.","code":""},{"path":"/reference/brandt.switchback.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":".E. Brandt (1938). Tests Significance Reversal Switchback Trials   Iowa State College, Agricultural Research Bulletins. Bulletin 234. Book 22.   https://lib.dr.iastate.edu/ag_researchbulletins/22/","code":""},{"path":"/reference/brandt.switchback.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Switchback experiment on dairy cattle, milk yield for two treatments — brandt.switchback","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)  data(brandt.switchback) dat <- brandt.switchback  # In each period, treatment 2 is slightly higher # bwplot(yield~trt|period,dat, layout=c(3,1), main=\"brandt.switchback\", #     xlab=\"Treatment\", ylab=\"Milk yield\")  # Yield at period 2 (trt T2) is above the trend in group A, # below the trend (trt T1) in group B. # Equivalently, treatment T2 is above the trend line libs(lattice) xyplot(yield~period|group, data=dat, group=cow, type=c('l','r'),     auto.key=list(columns=5), main=\"brandt.switchback\",     xlab=\"Period.  Group A: T1,T2,T1.  Group B: T2,T1,T2\",     ylab=\"Milk yield (observed and trend) per cow\")  # Similar to Brandt Table 10 m1 <- aov(yield~period+group+cow:group+period:group, data=dat) anova(m1)  } # }"},{"path":"/reference/bridges.cucumber.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"Cucumber yields latin square design two locs.","code":""},{"path":"/reference/bridges.cucumber.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"data frame 32 observations following 5 variables. loc location gen genotype/cultivar row row col column yield weight marketable fruit per plot","code":""},{"path":"/reference/bridges.cucumber.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"Conducted Clemson University 1985.  four cucumber cultivars   grown latin square design Clemson, SC, Tifton, GA. Separate variances modeled location. Plot dimensions given. Bridges (1989) used data illustrate fitting heterogeneous   mixed model. Used permission William Bridges.","code":""},{"path":"/reference/bridges.cucumber.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"William Bridges (1989).   Analysis plant breeding experiment   heterogeneous variances using mixed model equations.   Applications mixed models agriculture related     disciplines, S. Coop. Ser. Bull, 45–51.","code":""},{"path":"/reference/bridges.cucumber.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of cucumbers in a latin square design — bridges.cucumber","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(bridges.cucumber)   dat <- bridges.cucumber   dat <- transform(dat, rowf=factor(row), colf=factor(col))    libs(desplot)   desplot(dat, yield~col*row|loc,           # aspect unknown           text=gen, cex=1,           main=\"bridges.cucumber\")    # Graphical inference test for heterogenous variances   libs(nullabor)   # Create a lineup of datasets   fun <- null_permute(\"loc\")   dat20 <- lineup(fun, dat, n=20, pos=9)    # Now plot   libs(lattice)   bwplot(yield ~ loc|factor(.sample), dat20,          main=\"bridges.cucumber - graphical inference\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          ## Random row/col/resid. Same as Bridges 1989, p. 147     m1 <- asreml(yield ~ 1 + gen + loc + loc:gen,                  random = ~ rowf:loc + colf:loc, data=dat)        lucid::vc(m1)     ##   effect component std.error z.ratio bound      ## rowf:loc     31.62     23.02     1.4     P   0     ## colf:loc     18.08     15.32     1.2     P   0     ## units(R)     31.48     12.85     2.4     P   0          ## Random row/col/resid at each loc. Matches p. 147     m2 <- asreml(yield ~ 1 + gen + loc + loc:gen,                  random = ~ at(loc):rowf + at(loc):colf, data=dat,                  resid = ~ dsum( ~ units|loc))     lucid::vc(m2)     ##                effect component std.error z.ratio bound      ## at(loc, Clemson):rowf     32.32    36.58     0.88     P   0     ##  at(loc, Tifton):rowf     30.92    28.63     1.1      P   0     ## at(loc, Clemson):colf     22.55    28.78     0.78     P   0     ##  at(loc, Tifton):colf     13.62    14.59     0.93     P   0     ##        loc_Clemson(R)     46.85    27.05     1.7      P   0     ##         loc_Tifton(R)     16.11     9.299    1.7      P   0          predict(m2, data=dat, classify='loc:gen')$pvals     ##       loc      gen predicted.value std.error    status     ## 1 Clemson   Dasher            45.6      5.04 Estimable     ## 2 Clemson Guardian            31.6      5.04 Estimable     ## 3 Clemson Poinsett            21.4      5.04 Estimable     ## 4 Clemson   Sprint            26        5.04 Estimable     ## 5  Tifton   Dasher            50.5      3.89 Estimable     ## 6  Tifton Guardian            38.7      3.89 Estimable     ## 7  Tifton Poinsett            33        3.89 Estimable     ## 8  Tifton   Sprint            39.2      3.89 Estimable          # Is a heterogeneous model justified? Maybe not.     # m1$loglik     ## -67.35585     # m2$loglik     ## -66.35621   }    } # }"},{"path":"/reference/broadbalk.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"Long term wheat yields Broadbalk fields Rothamsted.","code":""},{"path":"/reference/broadbalk.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"data frame 1258 observations following 4 variables. year year plot plot grain grain yield, tonnes straw straw yield, tonnes","code":""},{"path":"/reference/broadbalk.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"Note: data 1852-1925.  can find recent data   experiments Electronic Rothamsted Archive:   https://www.era.rothamsted.ac.uk/ Rothamsted Experiment station conducted wheat experiments   Broadbalk Fields beginning 1844 data yields grain   straw collected 1852 1925.   Ronald Fisher hired analyze data agricultural trials.   Organic manures inorganic fertilizer treatments applied   various combinations plots. N1 48kg, N1.5 72kg, N2 96kg, N4 192kg nitrogen.  Electronic version data retrieved http://lib.stat.cmu.edu/datasets/Andrews/","code":""},{"path":"/reference/broadbalk.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"D.F. Andrews .M. Herzberg. 1985. \tData: Collection Problems Many Fields Student   Research Worker.   Springer.","code":""},{"path":"/reference/broadbalk.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"Broadbalk Winter Wheat Experiment.   https://www.era.rothamsted.ac.uk/index.php?area=home&page=index&dataset=4","code":""},{"path":"/reference/broadbalk.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Long term wheat yields on Broadbalk fields at Rothamsted. — broadbalk.wheat","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(broadbalk.wheat) dat <- broadbalk.wheat  libs(lattice) ## xyplot(grain~straw|plot, dat, type=c('p','smooth'), as.table=TRUE, ##        main=\"broadbalk.wheat\") xyplot(grain~year|plot, dat, type=c('p','smooth'), as.table=TRUE,        main=\"broadbalk.wheat\") # yields are decreasing  # See the treatment descriptions to understand the patterns redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(grain~year*plot, dat, main=\"broadbalk.wheat: Grain\", col.regions=redblue)  } # }"},{"path":"/reference/bryan.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"Uniformity trial corn 3 locations Iowa.","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"","code":"data(\"bryan.corn.uniformity\")"},{"path":"/reference/bryan.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"data frame 1728 observations following 4 variables. expt experiment (variety/orientation) row row col column yield yield, pounds per plot","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"Three varieties corn planted.   experiment 48 rows, row 48 hills long, .65 acres.   \"hill\" single hole possibly multiple seeds.   Spacing hills sqrt(43560 sq ft * .64) / 48 = 3.5 feet. experiment code, K=Krug, =Iodent, M=McCulloch (varieties   corn), 23=1923, 25=1925, E=East/West, N=North/South. experiment aggregated experimental units combining 8   hills, East/West direction also North/South direction.   Thus, field represented twice data, \"E\"   field name \"N\".","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"Arthur Bryan (1933).   Factors Affecting Experimental Error Field Plot Tests Corn.   Agricultural Experiment Station, Iowa State College. Tables 22-27.   https://hdl.handle.net/2027/uiug.30112019568168","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"None","code":""},{"path":"/reference/bryan.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn at 3 locations in Iowa. — bryan.corn.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(bryan.corn.uniformity)   dat <- bryan.corn.uniformity      libs(desplot)   desplot(dat, yield ~ col*row|expt,           main=\"bryan.corn.uniformity\",           aspect=(48*3.5/(6*8*3.5)), # true aspect           flip=TRUE, tick=TRUE)    # CVs in Table 5, column 8 hills   # libs(dplyr)   # dat    #   summarize(cv=sd(yield)/mean(yield)*100)   ##   expt    cv   ## 1 K23E  10.9   ## 2 K23N  10.9   ## 3 I25E  16.3   ## 4 I25N  17.0   ## 5 M25E  16.2   ## 6 M25N  17.2  } # }"},{"path":"/reference/buntaran.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"Multi-environment trial wheat Sweden 2016.","code":""},{"path":"/reference/buntaran.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"","code":"data(\"buntaran.wheat\")"},{"path":"/reference/buntaran.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"data frame 1069 observations following 7 variables. zone Geographic zone: south, middle, north loc Location rep Block replicate (4) alpha Incomplete-block alpha design gen Genotype (cultivar) yield Dry matter yield, kg/ha","code":""},{"path":"/reference/buntaran.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"Dry matter yield wheat trials Sweden 2016. experiments   location multi-rep incomplete blocks alpha   design. Electronic data online supplement Buntaran (2020) also \"init\" package https://github.com/Flavjack/inti.","code":""},{"path":"/reference/buntaran.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"Buntaran, Harimurti et al. (2020).   Cross-validation stagewise mixed-model analysis Swedish variety trials winter wheat spring barley.   Crop Science, 60, 2221-2240.   http://doi.org/10.1002/csc2.20177","code":""},{"path":"/reference/buntaran.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"None.","code":""},{"path":"/reference/buntaran.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat in Sweden in 2016. — buntaran.wheat","text":"","code":"if (FALSE) { # \\dontrun{ data(buntaran.wheat) library(agridat) dat <- buntaran.wheat library(lattice) bwplot(yield~loc|zone, dat, layout=c(1,3),        scales=list(x=list(rot=90)),        main=\"buntaran.wheat\") } # }"},{"path":"/reference/burgueno.alpha.html","id":null,"dir":"Reference","previous_headings":"","what":"Incomplete block alpha design — burgueno.alpha","title":"Incomplete block alpha design — burgueno.alpha","text":"Incomplete block alpha design","code":""},{"path":"/reference/burgueno.alpha.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Incomplete block alpha design — burgueno.alpha","text":"","code":"data(\"burgueno.alpha\")"},{"path":"/reference/burgueno.alpha.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Incomplete block alpha design — burgueno.alpha","text":"data frame 48 observations following 6 variables. rep rep, 3 levels block block, 12 levels row row col column gen genotype, 16 levels yield yield","code":""},{"path":"/reference/burgueno.alpha.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Incomplete block alpha design — burgueno.alpha","text":"field experiment 3 reps, 4 blocks per rep, laid alpha   design. plot size given. Electronic version data obtained CropStat software. Used permission Juan Burgueno.","code":""},{"path":"/reference/burgueno.alpha.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Incomplete block alpha design — burgueno.alpha","text":"J Burgueno, Cadena, J Crossa, M Banziger, Gilmour, B Cullis. 2000.   User's guide spatial analysis field variety trials using ASREML.   CIMMYT.   https://books.google.com/books?id=PR_tYCFyLCYC&pg=PA1","code":""},{"path":"/reference/burgueno.alpha.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Incomplete block alpha design — burgueno.alpha","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(burgueno.alpha)   dat <- burgueno.alpha    libs(desplot)   desplot(dat, yield~col*row,           out1=rep, out2=block, # aspect unknown           text=gen, cex=1,shorten=\"none\",           main='burgueno.alpha')     libs(lme4,lucid)   # Inc block model   m0 <- lmer(yield ~ gen + (1|rep/block), data=dat)   vc(m0) # Matches Burgueno p. 26   ##        grp        var1 var2   vcov sdcor   ##  block:rep (Intercept) <NA>  86900 294.8   ##        rep (Intercept) <NA> 200900 448.2   ##   Residual        <NA> <NA> 133200 365       if(require(\"asreml\", quietly=TRUE)) {     libs(asreml)          dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf),]                           # Sequence of models on page 36 of Burgueno          m1 <- asreml(yield ~  gen, data=dat)     m1$loglik # -232.13          m2 <- asreml(yield ~  gen, data=dat,                  random = ~ rep)     m2$loglik # -223.48          # Inc Block model     m3 <- asreml(yield ~  gen, data=dat,                  random = ~ rep/block)     m3$loglik # -221.42     m3$coef$fixed # Matches solution on p. 27          # AR1xAR1 model     m4 <- asreml(yield ~ 1 + gen, data=dat,                  resid = ~ar1(xf):ar1(yf))     m4$loglik # -221.47     plot(varioGram(m4), main=\"burgueno.alpha\") # Figure 1          m5 <- asreml(yield ~ 1 + gen, data=dat,                  random= ~ yf, resid = ~ar1(xf):ar1(yf))     m5$loglik # -220.07          m6 <- asreml(yield ~ 1 + gen + pol(yf,-2), data=dat,                  resid = ~ar1(xf):ar1(yf))     m6$loglik # -204.64          m7 <- asreml(yield ~ 1 + gen + lin(yf), data=dat,                  random= ~ spl(yf), resid = ~ar1(xf):ar1(yf))     m7$loglik # -212.51          m8 <- asreml(yield ~ 1 + gen + lin(yf), data=dat,                  random= ~ spl(yf))     m8$loglik # -213.91          # Polynomial model with predictions     m9 <- asreml(yield ~ 1 + gen + pol(yf,-2) + pol(xf,-2), data=dat,                  random= ~ spl(yf),                  resid = ~ar1(xf):ar1(yf))     m9 <- update(m9)     m9$loglik # -191.44 vs -189.61        m10 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   resid = ~ar1(xf):ar1(yf))     m10$loglik # -211.56          m11 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   random= ~ spl(yf),                   resid = ~ar1(xf):ar1(yf))     m11$loglik # -208.90          m12 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   random= ~ spl(yf)+spl(xf),                   resid = ~ar1(xf):ar1(yf))     m12$loglik # -206.82          m13 <- asreml(yield ~ 1 + gen + lin(yf)+lin(xf), data=dat,                   random= ~ spl(yf)+spl(xf))     m13$loglik # -207.52   }    } # }"},{"path":"/reference/burgueno.rowcol.html","id":null,"dir":"Reference","previous_headings":"","what":"Row-column design — burgueno.rowcol","title":"Row-column design — burgueno.rowcol","text":"Row-column design","code":""},{"path":"/reference/burgueno.rowcol.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Row-column design — burgueno.rowcol","text":"","code":"data(\"burgueno.rowcol\")"},{"path":"/reference/burgueno.rowcol.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Row-column design — burgueno.rowcol","text":"data frame 128 observations following 5 variables. rep rep, 2 levels row row col column gen genotype, 64 levels yield yield, tons/ha","code":""},{"path":"/reference/burgueno.rowcol.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Row-column design — burgueno.rowcol","text":"field experiment two contiguous replicates 8 rows, 16   columns. plot size given. Electronic version data obtained CropStat software. Used permission Juan Burgueno.","code":""},{"path":"/reference/burgueno.rowcol.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Row-column design — burgueno.rowcol","text":"J Burgueno, Cadena, J Crossa, M Banziger, Gilmour, B Cullis (2000).   User's guide spatial analysis field variety trials using ASREML.   CIMMYT.","code":""},{"path":"/reference/burgueno.rowcol.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Row-column design — burgueno.rowcol","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(burgueno.rowcol)   dat <- burgueno.rowcol    # Two contiguous reps in 8 rows, 16 columns   libs(desplot)   desplot(dat, yield ~ col*row,           out1=rep, # aspect unknown           text=gen, shorten=\"none\", cex=.75,           main=\"burgueno.rowcol\")    libs(lme4,lucid)      # Random rep, row and col within rep   # m1 <- lmer(yield ~ gen + (1|rep) + (1|rep:row) + (1|rep:col), data=dat)   # vc(m1) # Match components of Burgueno p. 40   ##      grp        var1 var2   vcov  sdcor   ##  rep:col (Intercept) <NA> 0.2189 0.4679   ##  rep:row (Intercept) <NA> 0.1646 0.4057   ##      rep (Intercept) <NA> 0.1916 0.4378   ## Residual        <NA> <NA> 0.1796 0.4238      if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          # AR1 x AR1 with linear row/col effects, random spline row/col     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf,dat$yf),]     m2 <- asreml(yield ~ gen + lin(yf) + lin(xf), data=dat,                  random = ~ spl(yf) + spl(xf),                  resid = ~ ar1(xf):ar1(yf))     m2 <- update(m2) # More iterations          # Scaling of spl components has changed in asreml from old versions     lucid::vc(m2) # Match Burgueno p. 42     ##       effect component std.error z.ratio bound      ##      spl(yf)  0.09077    0.08252   1.1       P 0     ##      spl(xf)  0.08107    0.08209   0.99      P 0     ##     xf:yf(R)  0.1482     0.03119   4.8       P 0     ## xf:yf!xf!cor  0.1152     0.2269    0.51      U 0.1     ## xf:yf!yf!cor  0.009467   0.2414    0.039     U 0.9          plot(varioGram(m2), main=\"burgueno.rowcol\")   }    } # }"},{"path":"/reference/burgueno.unreplicated.html","id":null,"dir":"Reference","previous_headings":"","what":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"Field experiment unreplicated genotypes plus one repeated check.","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"","code":"data(\"burgueno.unreplicated\")"},{"path":"/reference/burgueno.unreplicated.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"data frame 434 observations following 4 variables. gen genotype, 281 levels col column row row yield yield, tons/ha","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"field experiment 280 new genotypes.  check genotype   planted every 4th column. plot size given. Electronic version data obtained CropStat software. Used permission Juan Burgueno.","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"J Burgueno, Cadena, J Crossa, M Banziger, Gilmour, B Cullis (2000).   User's guide spatial analysis field variety trials using ASREML.   CIMMYT.","code":""},{"path":"/reference/burgueno.unreplicated.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Field experiment with unreplicated genotypes plus one repeated check. — burgueno.unreplicated","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(burgueno.unreplicated)   dat <- burgueno.unreplicated    # Define a 'check' variable for colors   dat$check <- ifelse(dat$gen==\"G000\", 2, 1)   # Every fourth column is the 'check' genotype   libs(desplot)   desplot(dat, yield ~ col*row,           col=check, num=gen, #text=gen, cex=.3, # aspect unknown           main=\"burgueno.unreplicated\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)      # AR1 x AR1 with random genotypes     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf,dat$yf),]     m2 <- asreml(yield ~ 1, data=dat, random = ~ gen,                  resid = ~ ar1(xf):ar1(yf))     lucid::vc(m2)     ##       effect component std.error z.ratio bound      ##          gen    0.9122   0.127       7.2     P 0       ##     xf:yf(R)    0.4993   0.05601     8.9     P 0       ## xf:yf!xf!cor   -0.2431   0.09156    -2.7     U 0       ## xf:yf!yf!cor    0.1255   0.07057     1.8     U 0.1          # Note the strong saw-tooth pattern in the variogram.  Seems to     # be column effects.     plot(varioGram(m2), xlim=c(0,15), ylim=c(0,9), zlim=c(0,0.5),          main=\"burgueno.unreplicated - AR1xAR1\")     # libs(lattice) # Show how odd columns are high     # bwplot(resid(m2) ~ col, data=dat, horizontal=FALSE)          # Define an even/odd column factor as fixed effect     # dat$oddcol <- factor(dat$col      # The modulus operator throws a bug, so do it the hard way.     dat$oddcol <- factor(dat$col - floor(dat$col / 2) *2 )        m3 <- update(m2, yield ~ 1 + oddcol)     m3$loglik # Matches Burgueno table 3, line 3          plot(varioGram(m3), xlim=c(0,15), ylim=c(0,9), zlim=c(0,0.5),          main=\"burgueno.unreplicated - AR1xAR1 + Even/Odd\")     # Much better-looking variogram   }    } # }"},{"path":"/reference/butron.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize with pedigrees — butron.maize","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"Maize yields multi-environment trial.  Pedigree included.","code":""},{"path":"/reference/butron.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"data frame 245 observations following 5 variables. gen genotype male male parent female female parent env environment yield yield, Mg/ha","code":""},{"path":"/reference/butron.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"Ten inbreds crossed produce diallel without reciprocals.   45 F1 crosses evaluated along 4 checks   triple-lattice 7x7 design.  Pink stem borer infestation natural. Experiments performed  1995 1996 three sites   northwestern Spain:   Pontevedra (42 deg 24 min N, 8 deg 38 min W, 20 m sea),   Pontecaldelas (42 deg 23 N, 8 min 32 W, 300 m sea),   Ribadumia (42 deg 30 N, 8 min 46 W, 50 m sea). two-letter location code year concatenated define   environment. average number larvae per plant environment: Used permission Ana Butron.","code":""},{"path":"/reference/butron.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"Butron, Velasco, P Ordas, Malvar, RA (2004).   Yield evaluation maize cultivars across environments different   levels pink stem borer infestation.   Crop Science, 44, 741-747.   https://doi.org/10.2135/cropsci2004.7410","code":""},{"path":"/reference/butron.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize with pedigrees — butron.maize","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(butron.maize)   dat <- butron.maize    libs(reshape2)   mat <- acast(dat, gen~env, value.var='yield')   mat <- sweep(mat, 2, colMeans(mat))   mat.svd <- svd(mat)   # Calculate PC1 and PC2 scores as in Table 4 of Butron   # Comment out to keep Rcmd check from choking on '   # round(mat.svd$u[,1:2]     biplot(princomp(mat), main=\"butron.maize\", cex=.7) # Figure 1 of Butron     if(require(\"asreml\", quietly=TRUE)) {      # Here we see if including pedigree information is helpful for a     # multi-environment model     # Including the pedigree provided little benefit          # Create the pedigree     ped <- dat[, c('gen','male','female')]     ped <- ped[!duplicated(ped),] # remove duplicates     unip <- unique(c(ped$male, ped$female)) # Unique parents     unip <- unip[!is.na(unip)]     # We have to define parents at the TOP of the pedigree     ped <- rbind(data.frame(gen=c(\"Dent\",\"Flint\"), # genetic groups                             male=c(0,0),                             female=c(0,0)),                  data.frame(gen=c(\"A509\",\"A637\",\"A661\",\"CM105\",\"EP28\",                                   \"EP31\",\"EP42\",\"F7\",\"PB60\",\"Z77016\"),                             male=rep(c('Dent','Flint'),each=5),                             female=rep(c('Dent','Flint'),each=5)),                  ped)     ped[is.na(ped$male),'male'] <- 0     ped[is.na(ped$female),'female'] <- 0      libs(asreml)     ped.ainv <- ainverse(ped)            m0 <- asreml(yield ~ 1+env, data=dat, random = ~ gen)     m1 <- asreml(yield ~ 1+env, random = ~ vm(gen, ped.ainv), data=dat)     m2 <- update(m1, random = ~ idv(env):vm(gen, ped.ainv))     m3 <- update(m2, random = ~ diag(env):vm(gen, ped.ainv))     m4 <- update(m3, random = ~ fa(env,1):vm(gen, ped.ainv))     #summary(m0)$aic     #summary(m4)$aic     ##    df      AIC     ## m0  2 229.4037     ## m1  2 213.2487     ## m2  2 290.6156     ## m3  6 296.8061     ## m4 11 218.1568          p0 <- predict(m0, data=dat, classify=\"gen\")$pvals     p1 <- predict(m1, data=dat, classify=\"gen\")$pvals     p1par <- p1[1:12,]   # parents     p1 <- p1[-c(1:12),]  # remove parents     # Careful!  Need to manually sort the predictions     p0 <- p0[order(as.character(p0$gen)),]     p1 <- p1[order(as.character(p1$gen)),]          # lims <- range(c(p0$pred, p1$pred)) * c(.95,1.05)     lims <- c(6,8.25) # zoom in on the higher-yielding hybrids     plot(p0$predicted.value, p1$predicted.value,          pch=\"\", xlim=lims, ylim=lims, main=\"butron.maize\",          xlab=\"BLUP w/o pedigree\", ylab=\"BLUP with pedigree\")     abline(0,1,col=\"lightgray\")     text(x=p0$predicted.value, y=p1$predicted.value,          p0$gen, cex=.5, srt=-45)     text(x=min(lims), y=p1par$predicted.value, p1par$gen, cex=.5, col=\"red\")     round( cor(p0$predicted.value, p1$predicted.value), 3)     # 0.994     # Including the pedigree provided very little change   }    } # }"},{"path":"/reference/byers.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Diameters of apples — byers.apple","title":"Diameters of apples — byers.apple","text":"Measurements diameters apples","code":""},{"path":"/reference/byers.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diameters of apples — byers.apple","text":"data frame 480 observations following 6 variables. tree tree, 10 levels apple apple, 24 levels size size apple appleid unique id number apple time time period, 1-6 = (week/2) diameter diameter, inches","code":""},{"path":"/reference/byers.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diameters of apples — byers.apple","text":"Experiment conducted Winchester Agricultural Experiment Station   Virginia Polytechnic Institute State University.   Twentyfive   apples chosen ten apple trees. , 80 apples largest size class, 2.75 inches   diameter greater. diameters apples recorded every two weeks   12-week period.","code":""},{"path":"/reference/byers.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diameters of apples — byers.apple","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil     Sciences. CRC Press, Boca Raton, FL.","code":""},{"path":"/reference/byers.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diameters of apples — byers.apple","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(byers.apple)   dat <- byers.apple    libs(lattice)   xyplot(diameter ~ time | factor(appleid), data=dat, type=c('p','l'),          strip=strip.custom(par.strip.text=list(cex=.7)),          main=\"byers.apple\")    # Overall fixed linear trend, plus random intercept/slope deviations   # for each apple.  Observations within each apple are correlated.   libs(nlme)   libs(lucid)   m1 <- lme(diameter ~ 1 + time, data=dat,             random = ~ time|appleid, method='ML',             cor = corAR1(0, form=~ time|appleid),             na.action=na.omit)   vc(m1)   ##       effect   variance   stddev corr   ##  (Intercept) 0.007354   0.08575    NA   ##         time 0.00003632 0.006027 0.83   ##     Residual 0.0004555  0.02134    NA } # }"},{"path":"/reference/caribbean.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize with fertilization — caribbean.maize","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"Maize fertilization trial Antigua St. Vincent.","code":""},{"path":"/reference/caribbean.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"data frame 612 observations following 7 variables. isle island, 2 levels site site block block plot plot, numeric trt treatment factor combining N,P,K ears number ears harvested yield yield kilograms N nitrogen fertilizer level P phosphorous fertilizer level K potassium fertilizer level","code":""},{"path":"/reference/caribbean.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"Antigua coral island Caribbean sufficient level   land experiments semi-arid climate, St. Vincent   volcanic level areas uncommon, rainfall can   seasonally heavy. 8-9 sites island. Plots 16 feet 18 feet. central area 12 feet 12 feet   harvested recorded. number ears harvested recorded isle Antigua. actual amounts N, P, K given. 0, 1, 2, 3. digits treatment represent levels nitrogen,   phosphorus, potassium fertilizer, respectively. TEAN site suffered damage goats plot 27, 35 36. LFAN site suffered damage cattle one boundary–plots 9,   18, 27, 36. Electronic version data retrieved   http://lib.stat.cmu.edu/datasets/Andrews/   https://www2.stat.duke.edu/courses/Spring01/sta114/data/andrews.html","code":""},{"path":"/reference/caribbean.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"D.F. Andrews .M. Herzberg. 1985. \tData: Collection Problems Many Fields Student \tResearch Worker.   Springer.   Table 58.1 58.2.","code":""},{"path":"/reference/caribbean.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"Also DAAG package data sets antigua stVincent.","code":""},{"path":"/reference/caribbean.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize with fertilization — caribbean.maize","text":"","code":"library(agridat) data(caribbean.maize) dat <- caribbean.maize  # Yield and ears are correlated libs(lattice) xyplot(yield~ears|site, dat, ylim=c(0,10), subset=isle==\"Antigua\",        main=\"caribbean.maize - Antiqua\")   # Some locs show large response to nitrogen (as expected), e.g. UISV, OOSV dotplot(trt~yield|site, data=dat, main=\"caribbean.maize treatment response\")   # Show the strong N*site interaction with little benefit on Antiqua, but # a strong response on St.Vincent. dat <- transform(dat, env=paste(substring(isle,1,1),site,sep=\"-\")) bwplot(yield~N|env, dat,        main=\"caribbean.maize\", xlab=\"nitrogen\")"},{"path":"/reference/carlson.germination.html","id":null,"dir":"Reference","previous_headings":"","what":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"Germination alfalfa seeds various salt concentrations","code":""},{"path":"/reference/carlson.germination.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"","code":"data(\"carlson.germination\")"},{"path":"/reference/carlson.germination.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"data frame 120 observations following 3 variables. gen genotype factor, 15 levels germ germination percent, 0-100 nacl salt concentration percent, 0-2","code":""},{"path":"/reference/carlson.germination.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"Data means averaged 5, 10, 15, 20 day counts.   Germination expressed percent -salt control   account differences germination among cultivars.","code":""},{"path":"/reference/carlson.germination.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"Carlson, JR Ditterline, RL Martin, JM Sands, DC Lund,   RE. (1983).   Alfalfa Seed Germination Antibiotic Agar Containing NaCl.   Crop science, 23, 882-885.   https://doi.org/10.2135/cropsci1983.0011183X002300050016x","code":""},{"path":"/reference/carlson.germination.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Germination of alfalfa seeds at various salt concentrations — carlson.germination","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(carlson.germination) dat <- carlson.germination dat$germ <- dat$germ/100 # Convert to percent  # Separate response curve for each genotype. # Really, we should use a glmm with random int/slope for each genotype m1 <- glm(germ~ 0 + gen*nacl, data=dat, family=quasibinomial)  # Plot data and fitted model libs(latticeExtra) newd <- data.frame(expand.grid(gen=levels(dat$gen), nacl=seq(0,2,length=100))) newd$pred <- predict(m1, newd, type=\"response\") xyplot(germ~nacl|gen, dat, as.table=TRUE, main=\"carlson.germination\",        xlab=\"Percent NaCl\", ylab=\"Fraction germinated\") + xyplot(pred~nacl|gen, newd, type='l', grid=list(h=1,v=0))   # Calculate LD50 values.  Note, Carlson et al used quadratics, not glm. # MASS::dose.p cannot handle multiple slopes, so do a separate fit for # each genotype.  Results are vaguely similar to Carlson table 5. ## libs(MASS) ## for(ii in unique(dat$gen)){ ##   cat(\"\\n\", ii, \"\\n\") ##   mm <- glm(germ ~ 1 + nacl, data=dat, subset=gen==ii, family=quasibinomial(link=\"probit\")) ##   print(dose.p(mm)) ## } ##              Dose         SE ## Anchor    1.445728  0.05750418 ## Apollo    1.305804  0.04951644 ## Baker     1.444153  0.07653989 ## Drylander 1.351201  0.03111795 ## Grimm     1.395735  0.04206377  } # }"},{"path":"/reference/carmer.density.html","id":null,"dir":"Reference","previous_headings":"","what":"Nonlinear maize yield-density model — carmer.density","title":"Nonlinear maize yield-density model — carmer.density","text":"Nonlinear maize yield-density model.","code":""},{"path":"/reference/carmer.density.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Nonlinear maize yield-density model — carmer.density","text":"data frame 32 observations following 3 variables. gen genotype/hybrid, 8 levels pop population (plants) yield yield, pounds per hill","code":""},{"path":"/reference/carmer.density.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Nonlinear maize yield-density model — carmer.density","text":"Eight single-cross hybrids experiment–Hy2xOh7 WF9xC103   included believed optimum yields relatively   high low populations.  Planted 1963.  Plots thinned   2, 4, 6, 8 plants per hill, giving densities 8, 16, 24, 32 thousand   plants per acre.  Hills rows 40 inches apart.   One hill = 1/4000 acre.   Split-plot design 5 reps, density main plot subplot hybrid.","code":""},{"path":"/reference/carmer.density.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Nonlinear maize yield-density model — carmer.density","text":"S G Carmer J Jackobs (1965).   Exponential Model Predicting Optimum Plant Density Maximum   Corn Yield. Agronomy Journal, 57, 241–244.   https://doi.org/10.2134/agronj1965.00021962005700030003x","code":""},{"path":"/reference/carmer.density.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Nonlinear maize yield-density model — carmer.density","text":"","code":"library(agridat) data(carmer.density) dat <- carmer.density dat$gen <- factor(dat$gen, levels=c('Hy2x0h7','WF9xC103','R61x187-2',                              'WF9x38-11','WF9xB14','C103xB14',                              '0h43xB37','WF9xH60'))  # Separate analysis for each hybrid # Model: y = x * a * k^x.  Table 1 of Carmer and Jackobs. out <- data.frame(a=rep(NA,8), k=NA) preds <- NULL rownames(out) <- levels(dat$gen) newdat <- data.frame(pop=seq(2,8,by=.1)) for(i in levels(dat$gen)){   print(i)   dati <- subset(dat, gen==i)   mi <- nls(yield ~ pop * a * k^pop, data=dati, start=list(a=10,k=1))   out[i, ] <- mi$m$getPars()   # Predicted values   pi <- cbind(gen=i, newdat, pred= predict(mi, newdat=newdat))   preds <- rbind(preds, pi) } #> [1] \"Hy2x0h7\" #> [1] \"WF9xC103\" #> [1] \"R61x187-2\" #> [1] \"WF9x38-11\" #> [1] \"WF9xB14\" #> [1] \"C103xB14\" #> [1] \"0h43xB37\" #> [1] \"WF9xH60\" # Optimum plant density is -1/log(k) out$pop.opt <- -1/log(out$k) round(out, 3) #>               a     k pop.opt #> Hy2x0h7   0.782 0.865   6.875 #> WF9xC103  1.039 0.825   5.192 #> R61x187-2 0.998 0.798   4.441 #> WF9x38-11 1.042 0.825   5.203 #> WF9xB14   1.067 0.806   4.647 #> C103xB14  0.813 0.860   6.653 #> 0h43xB37  0.673 0.862   6.740 #> WF9xH60   0.858 0.854   6.358 ##               a     k pop.opt ## Hy2x0h7   0.782 0.865   6.875 ## WF9xC103  1.039 0.825   5.192 ## R61x187-2 0.998 0.798   4.441 ## WF9x38-11 1.042 0.825   5.203 ## WF9xB14   1.067 0.806   4.647 ## C103xB14  0.813 0.860   6.653 ## 0h43xB37  0.673 0.862   6.740 ## WF9xH60   0.858 0.854   6.358   # Fit an overall fixed-effect with random deviations for each hybrid. libs(nlme) m1 <- nlme(yield ~ pop * a * k^pop,            fixed = a + k ~ 1,            random = a + k ~ 1|gen,            data=dat, start=c(a=10,k=1)) # summary(m1) # Random effect for 'a' probably not needed   libs(latticeExtra) # Plot Data, fixed-effect prediction, random-effect prediction. pdat <- expand.grid(gen=levels(dat$gen), pop=seq(2,8,length=50)) pdat$pred <- predict(m1, pdat) pdat$predf <- predict(m1, pdat, level=0)  xyplot(yield~pop|gen, dat, pch=16, as.table=TRUE,        main=\"carmer.density models\",        key=simpleKey(text=c(\"Data\", \"Fixed effect\",\"Random effect\"),          col=c(\"blue\", \"red\",\"darkgreen\"), columns=3, points=FALSE)) +   xyplot(predf~pop|gen, pdat, type='l', as.table=TRUE, col=\"red\") +   xyplot(pred~pop|gen, pdat, type='l', col=\"darkgreen\", lwd=2)"},{"path":"/reference/cate.potassium.html","id":null,"dir":"Reference","previous_headings":"","what":"Relative cotton yield for different soil potassium concentrations — cate.potassium","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"Relative cotton yield different soil potassium concentrations","code":""},{"path":"/reference/cate.potassium.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"data frame 24 observations following 2 variables. yield Relative yield potassium Soil potassium, ppm","code":""},{"path":"/reference/cate.potassium.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"Cate & Nelson used data determine minimum optimal amount   soil potassium achieve maximum yield. Note, Fig 1 Cate & Nelson match data Table 2.    sort appears points high-concentrations potassium   shifted left truncation point.  Also, calculations   quite match results Table 1.  Perhaps published data   rounded?","code":""},{"path":"/reference/cate.potassium.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"Cate, R.B. Nelson, L.. (1971).   simple statistical procedure partitioning soil test correlation   data two classes.   Soil Science Society America Journal, 35, 658–660.   https://doi.org/10.2136/sssaj1971.03615995003500040048x","code":""},{"path":"/reference/cate.potassium.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Relative cotton yield for different soil potassium concentrations — cate.potassium","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cate.potassium) dat <- cate.potassium names(dat) <- c('y','x')  CateNelson <- function(dat){   dat <- dat[order(dat$x),] # Sort the data by x   x <- dat$x   y <- dat$y    # Create a data.frame to store the results   out <- data.frame(x=NA, mean1=NA, css1=NA, mean2=NA, css2=NA, r2=NA)    css <- function(x) { var(x) * (length(x)-1) }   tcss <- css(y) # Total corrected sum of squares    for(i in 2:(length(y)-2)){     y1 <- y[1:i]     y2 <- y[-(1:i)]      out[i, 'x'] <- x[i]     out[i, 'mean1'] <- mean(y1)     out[i, 'mean2'] <- mean(y2)     out[i, 'css1'] <- css1 <- css(y1)     out[i, 'css2'] <- css2 <- css(y2)     out[i, 'r2'] <-  ( tcss - (css1+css2)) / tcss   }   return(out) }  cn <- CateNelson(dat) ix <- which.max(cn$r2) with(dat, plot(y~x, ylim=c(0,110), xlab=\"Potassium\", ylab=\"Yield\")) title(\"cate.potassium - Cate-Nelson analysis\") abline(v=dat$x[ix], col=\"skyblue\") abline(h=(dat$y[ix] + dat$y[ix+1])/2, col=\"skyblue\")    # another approach with similar results   # https://joe.org/joe/2013october/tt1.php   libs(\"rcompanion\")   cateNelson(dat$x, dat$y, plotit=0) } # }"},{"path":"/reference/chakravertti.factorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"Factorial experiment rice, 3x5x3x3.","code":""},{"path":"/reference/chakravertti.factorial.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"","code":"data(\"chakravertti.factorial\")"},{"path":"/reference/chakravertti.factorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"data frame 405 observations following 7 variables. block block/field yield yield date planting date, 5 levels gen genotype/variety, 3 levels treat treatment combination, 135 levels seeds number seeds per hole, 3 levels spacing spacing, inches, 3 levels","code":""},{"path":"/reference/chakravertti.factorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"4 treatment factors: 3 Genotypes (varieties): Nehara, Bhasamanik, Bhasakalma 5 Planting dates: Jul 16, Aug 1, Aug 16, Sep 1, Sep 16 3 Spacings: 6 , 9 , 12 inches 3 Seedlings per hole: 1, 2, local method 3x5x3x3=135 treatment combinations.   experiment divided 3 blocks (fields).   Total 405 plots. \"plots sowing date within block grouped   together, position occupied sowing date groups within   Within blocks determined random. grouping together   plots sewing date adopted facilitate cultural   operations. reason, three varieties also laid   compact rows. nine combinations spacings seedling   numbers thrown random within combination date   planting variety shown diagram.\" Note: diagram appears show treatment combinations,   physical layout. Basically, date whole-plot effect, genotype sub-plot effect,   9 treatments (spacings * seedlings) completely randomized   withing sub-plot effect.","code":""},{"path":"/reference/chakravertti.factorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"Chakravertti, S. C. S. S. Bose P. C. Mahalanobis (1936).   complex experiment rice Chinsurah farm, Bengal, 1933-34.   Indian Journal Agricultural Science, 6, 34-51.   https://archive.org/details/.ernet.dli.2015.271737/page/n83/mode/2up","code":""},{"path":"/reference/chakravertti.factorial.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"None","code":""},{"path":"/reference/chakravertti.factorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of rice, 3x5x3x3 — chakravertti.factorial","text":"","code":"if (FALSE) { # \\dontrun{    libs(agridat)   data(chakravertti.factorial)   dat <- chakravertti.factorial      # Simple means for each factor. Same as Chakravertti Table 3   group_by(dat, gen)    group_by(dat, date)    group_by(dat, spacing)    group_by(dat, seeds)     libs(HH)   interaction2wt(yield ~ gen + date + spacing + seeds, data=dat, main=\"chakravertti.factorial\")    # ANOVA matches Chakravertti table 2   # This has a very interesting error structure.   # block:date is error term for date   # block:date:gen is error term for gen and date:gen   # Residual is error term for all other tests (not needed inside Error())   dat <- transform(dat,spacing=factor(spacing))   m2 <- aov(yield ~ block + date +                gen + date:gen +                spacing + seeds +               seeds:spacing + date:seeds + date:spacing + gen:seeds + gen:spacing +               date:gen:seeds + date:gen:spacing + date:seeds:spacing + gen:seeds:spacing +               date:gen:seeds:spacing + Error(block/(date + date:gen)),             data=dat)   summary(m2)    } # }"},{"path":"/reference/chinloy.fractionalfactorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"Fractional factorial sugarcane, 1/3 3^5 = 3x3x3x3x3.","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"","code":"data(\"chinloy.fractionalfactorial\")"},{"path":"/reference/chinloy.fractionalfactorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"data frame 81 observations following 10 variables. yield yield block block row row position col column position trt treatment code n nitrogen treatment, 3 levels 0, 1, 2 p phosphorous treatment, 3 levels 0, 1, 2 k potassium treatment, 3 levels 0, 1, 2 b bagasse treatment, 3 levels 0, 1, 2 m filter press mud treatment, 3 levels 0, 1, 2","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"experiment grown 1949 Worthy Park Estate Jamaica. 5 treatment factors: 3 Nitrogen levels: 0, 3, 6 hundred-weight per acre. 3 Phosphorous levels: 0, 4, 8 hundred-weight per acre. 3 Potassium (muriate potash) levels: 0, 1, 2 hundred-weight   per acre. 3 Bagasse (applied pre-plant) levels: 0, 20, 40 tons per acre. 3 Filter press mud (applied pre-plant) levels: 0, 10, 20 tons per acre. plot 18 yards long 6 yards (3 rows) wide. Plots   arranged nine columns nine, 2-yard space separating plots   along rows two guard rows separating plots across rows. Field width: 6 yards * 9 plots + 4 yards * 8 gaps = 86 yards Field length: 18 yards * 9 plots + 2 yards * 8 gaps = 178 yards","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"T. Chinloy, R. F. Innes D. J. Finney. (1953).   example fractional replication experiment sugar cane manuring.   Journ Agricultural Science, 43, 1-11.   https://doi.org/10.1017/S0021859600044567","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"None","code":""},{"path":"/reference/chinloy.fractionalfactorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fractional factorial of sugarcane, 1/3 3^5 = 3x3x3x3x3 — chinloy.fractionalfactorial","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(chinloy.fractionalfactorial) dat <- chinloy.fractionalfactorial  # Treatments are coded with levels 0,1,2. Make sure they are factors dat <- transform(dat,                  n=factor(n), p=factor(p), k=factor(k), b=factor(b), m=factor(m))  # Experiment layout libs(desplot) desplot(dat, yield ~ col*row,         out1=block, text=trt, shorten=\"no\", cex=0.6,         aspect=178/86,         main=\"chinloy.fractionalfactorial\")  # Main effect and some two-way interactions. These match Chinloy table 6. # Not sure how to code terms like p^2k=b^2m m1 <- aov(yield ~ block + n + p + k + b + m + n:p + n:k + n:b + n:m, dat) anova(m1)  } # }"},{"path":"/reference/christidis.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Competition between varieties in cotton — christidis.competition","title":"Competition between varieties in cotton — christidis.competition","text":"Competition varieties cotton, measurements taken row.","code":""},{"path":"/reference/christidis.competition.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Competition between varieties in cotton — christidis.competition","text":"","code":"data(\"christidis.competition\")"},{"path":"/reference/christidis.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Competition between varieties in cotton — christidis.competition","text":"data frame 270 observations following 8 variables. plot plot plotrow row within plot block block row row, 1 row col column gen genotype yield yield, kg height height, cm","code":""},{"path":"/reference/christidis.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Competition between varieties in cotton — christidis.competition","text":"Nine genotypes/varieties cotton used variety test.   plots 100 meters long 2.40 meters wide, plot   3 rows 0.80 meters apart. layout RCB 5 blocks, block 2 replicates   every variety (original intention trying 2 seed   treatments). row harvested/weighed separately.   leaves plants dried fallen, mean   height row measured. Christidis found significant competition varieties,   due height differences. Crude analysis. TODO: Find better analysis data incorporates field   trends competition effects, maybe including random effect   border rows genotype pairs (neighbors)?","code":""},{"path":"/reference/christidis.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Competition between varieties in cotton — christidis.competition","text":"Christidis, Basil G (1935).   Intervarietal competition yield trials cotton.   Journal Agricultural Science, 25, 231-237. Table 1.   https://doi.org/10.1017/S0021859600009710","code":""},{"path":"/reference/christidis.competition.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Competition between varieties in cotton — christidis.competition","text":"None","code":""},{"path":"/reference/christidis.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Competition between varieties in cotton — christidis.competition","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(christidis.competition) dat <- christidis.competition  # Match Christidis Table 2 means # aggregate(yield ~ gen, aggregate(yield ~ gen+plot, dat, sum), mean)  # Each RCB block has 2 replicates of each genotype # with(dat, table(block,gen))  libs(lattice)  # Tall plants yield more # xyplot(yield ~ height|gen, data=dat)  # Huge yield variation across field. Also heterogeneous variance. xyplot(yield ~ col, dat, group=gen, auto.key=list(columns=5),        main=\"christidis.competition\")   libs(mgcv) if(is.element(\"package:gam\", search())) detach(\"package:gam\") # Simple non-competition model to remove main effects m1 <- gam(yield ~ gen + s(col), data=dat) p1 <- as.data.frame(predict(m1, type=\"terms\")) names(p1) <- c('geneff','coleff') dat2 <- cbind(dat, p1) dat2 <- transform(dat2, res=yield-geneff-coleff) libs(lattice) xyplot(res ~  col, data=dat2, group=gen,        main=\"christidis.competition - residuals\")  } # }"},{"path":"/reference/christidis.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — christidis.cotton.uniformity","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"Uniformity trial cotton Greece, 1938","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"","code":"data(\"christidis.cotton.uniformity\")"},{"path":"/reference/christidis.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"data frame 1024 observations following 4 variables. col column row row yield yield, kg/unit block block factor","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"experiment conducted 1938 Sindos Greek Cotton Research Institute. block consisted 20 rows, 1 meter apart 66 meters long. Two   rows side 1 meter end removed   borders. row divided 4 meter-lengths harvested   separately.  4 blocks, oriented 0, 30, 60, 90 degrees. block contained 16 rows, 64 meters long. Field width: 16 units * 4 m = 64 m Field depth: 16 rows * 1 m = 16 m","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"Christidis, B. G. (1939).   Variability Plots Various Shapes Affected Plot Orientation.   Empire Journal Experimental Agriculture 7: 330-342. Table 1.","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"None","code":""},{"path":"/reference/christidis.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — christidis.cotton.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(christidis.cotton.uniformity) dat <- christidis.cotton.uniformity    # Match the mean yields in table 2. Not sure why '16' is needed # sapply(split(dat$yield, dat$block), mean)*16    libs(desplot) dat$yld <- dat$yield/4*1000 # re-scale to match Christidis fig 1 desplot(dat, yld ~ col*row|block,         flip=TRUE, aspect=(16)/(64),         main=\"christidis.cotton.uniformity\")  } # }"},{"path":"/reference/christidis.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — christidis.wheat.uniformity","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"Uniformity trial wheat Cambridge, UK 1931.","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"","code":"data(\"christidis.wheat.uniformity\")"},{"path":"/reference/christidis.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"data frame 288 observations following 3 variables. row row col column yield yield","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"Two blocks, 24 rows . block , 90-foot row divided 12 units, unit 7.5 feet long. Rows 8 inches wide. Field width: 12 units * 7.5 feet = 90 feet Field length: 24 rows * 8 inches = 16 feet","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"Christidis, Basil G (1931).   importance shape plots field experimentation.   Journal Agricultural Science, 21, 14-37. Table VI, p. 28.   https://dx.doi.org/10.1017/S0021859600007942","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"None","code":""},{"path":"/reference/christidis.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — christidis.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(christidis.wheat.uniformity) dat <- christidis.wheat.uniformity    # sum(dat$yield) # Matches Christidis     libs(desplot)  desplot(dat, yield ~  col*row,          flip=TRUE, aspect=16/90, # true aspect          main=\"christidis.wheat.uniformity\")  } # }"},{"path":"/reference/cleveland.soil.html","id":null,"dir":"Reference","previous_headings":"","what":"Soil resistivity in a field — cleveland.soil","title":"Soil resistivity in a field — cleveland.soil","text":"Soil resistivity field","code":""},{"path":"/reference/cleveland.soil.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soil resistivity in a field — cleveland.soil","text":"data frame 8641 observations following 5 variables. northing y ordinate easting x ordinate resistivity Soil resistivity, ohms .ns Indicator north/south track track Track number","code":""},{"path":"/reference/cleveland.soil.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soil resistivity in a field — cleveland.soil","text":"Resistivity related soil salinity. Electronic version data retrieved   http://lib.stat.cmu.edu/datasets/Andrews/ Cleaned version Luke Tierney   https://homepage.stat.uiowa.edu/~luke/classes/248/examples/soil","code":""},{"path":"/reference/cleveland.soil.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soil resistivity in a field — cleveland.soil","text":"William Cleveland, (1993).   Visualizing Data.","code":""},{"path":"/reference/cleveland.soil.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soil resistivity in a field — cleveland.soil","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(cleveland.soil)   dat <- cleveland.soil    # Similar to Cleveland fig 4.64   ## libs(latticeExtra)   ## redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   ## levelplot(resistivity ~ easting + northing, data = dat,   ##           col.regions=redblue,   ##           panel=panel.levelplot.points,   ##           aspect=2.4, xlab= \"Easting (km)\", ylab= \"Northing (km)\",   ##           main=\"cleveland\")      # 2D loess plot. Cleveland fig 4.68   sg1 <- expand.grid(easting = seq(.15, 1.410, by = .02),                      northing = seq(.150, 3.645, by = .02))   lo1 <- loess(resistivity~easting*northing, data=dat, span = 0.1, degree = 2)   fit1 <- predict(lo1, sg1)   libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   levelplot(fit1 ~ sg1$easting * sg1$northing,             col.regions=redblue,             cuts = 9,             aspect=2.4, xlab = \"Easting (km)\", ylab = \"Northing (km)\",             main=\"cleveland.soil - 2D smooth of Resistivity\")      # 3D loess plot with data overlaid   libs(rgl)   bg3d(color = \"white\")   clear3d()   points3d(dat$easting, dat$northing, dat$resistivity / 100,            col = rep(\"gray50\", nrow(dat)))   rgl::surface3d(seq(.15, 1.410, by = .02),                  seq(.150, 3.645, by = .02),                  fit1/100, alpha=0.9, col=rep(\"wheat\", length(fit1)),                  front=\"fill\", back=\"fill\")   close3d() } # }"},{"path":"/reference/cochran.beets.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"Yield number plants sugarbeet fertilizer experiment.","code":""},{"path":"/reference/cochran.beets.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"","code":"data(\"cochran.beets\")"},{"path":"/reference/cochran.beets.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"data frame 42 observations following 4 variables. fert fertilizer treatment block block yield yield, tons/acres plants number plants per plot","code":""},{"path":"/reference/cochran.beets.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"Yield (tons/acre) number beets per plot.  Fertilizer   treatments combine superphosphate (P), muriate potash (K),   sodium nitrate (N).","code":""},{"path":"/reference/cochran.beets.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"George Snedecor (1946).   Statisitcal Methods, 4th ed. Table 12.13, p. 332.","code":""},{"path":"/reference/cochran.beets.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"H. Fairfield Smith (1957).   Interpretation Adjusted Treatment Means Regressions Analysis   Covariance.   Biometrics, 13, 282-308.   https://doi.org/10.2307/2527917","code":""},{"path":"/reference/cochran.beets.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield and number of plants in a sugarbeet fertilizer experiment — cochran.beets","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cochran.beets) dat = cochran.beets  # P has strong effect libs(lattice) xyplot(yield ~ plants|fert, dat, main=\"cochran.beets\")   } # }"},{"path":"/reference/cochran.bib.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"Balanced incomplete block design corn","code":""},{"path":"/reference/cochran.bib.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"data frame 52 observations following 3 variables. loc location/block, 13 levels gen genotype/line, 13 levels yield yield, pounds/plot","code":""},{"path":"/reference/cochran.bib.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"Incomplete block design.  loc/block 4 genotypes/lines.   blocks planted different locations. Conducted 1943 North Carolina.","code":""},{"path":"/reference/cochran.bib.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"North Carolina Agricultural Experiment Station,   United States Department Agriculture.","code":""},{"path":"/reference/cochran.bib.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"Cochran, W.G. Cox, G.M. (1957),   Experimental Designs, 2nd ed., Wiley Sons, New York, p. 448.","code":""},{"path":"/reference/cochran.bib.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn, balanced incomplete block design — cochran.bib","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(cochran.bib) dat <- cochran.bib  # Show the incomplete-block structure libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield~loc*gen, dat,           col.regions=redblue,           xlab=\"loc (block)\", main=\"cochran.bib - incomplete blocks\")  with(dat, table(gen,loc)) rowSums(as.matrix(with(dat, table(gen,loc)))) colSums(as.matrix(with(dat, table(gen,loc))))  m1 = aov(yield ~ gen + Error(loc), data=dat) summary(m1)  libs(nlme) m2 = lme(yield ~ -1 + gen, data=dat, random=~1|loc)  } # }"},{"path":"/reference/cochran.crd.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato scab infection with sulfur treatments — cochran.crd","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"Potato scab infection sulfur treatments","code":""},{"path":"/reference/cochran.crd.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"data frame 32 observations following 5 variables. inf infection percent trt treatment factor row row col column","code":""},{"path":"/reference/cochran.crd.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"experiment conducted investigate effect sulfur   controlling scab disease potatoes. seven treatments.   Control, plus spring fall application 300, 600, 1200 pounds/acre   sulfur.  response variable infection percent surface   area covered scab.  completely randomized design used 8   replications control 4 replications treatments. Although original analysis show significant differences   sulfur treatments, including polynomial trend model   uncovered significant differences (Tamura, 1988).","code":""},{"path":"/reference/cochran.crd.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"W.G. Cochran G. Cox, 1957.  Experimental Designs, 2nd   ed. John Wiley, New York.","code":""},{"path":"/reference/cochran.crd.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"Tamura, R.N. Nelson, L.. Naderman, G.C., (1988).   investigation validity usefulness   trend analysis field plot data.   Agronomy Journal, 80, 712-718. https://doi.org/10.2134/agronj1988.00021962008000050003x","code":""},{"path":"/reference/cochran.crd.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato scab infection with sulfur treatments — cochran.crd","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cochran.crd) dat <- cochran.crd  # Field plan libs(desplot) desplot(dat, inf~col*row,         text=trt, cex=1, # aspect unknown         main=\"cochran.crd\")  # CRD anova.  Table 6 of Tamura 1988 contrasts(dat$trt) <- cbind(c1=c(1,1,1,-6,1,1,1),   # Control vs Sulf                             c2=c(-1,-1,-1,0,1,1,1)) # Fall vs Sp m1 <- aov(inf ~ trt, data=dat) anova(m1) summary(m1, split=list(trt=list(\"Control vs Sulf\"=1, \"Fall vs Spring\"=2)))  # Quadratic polynomial for columns...slightly different than Tamura 1988 m2 <- aov(inf ~ trt + poly(col,2), data=dat) anova(m2) summary(m2, split=list(trt=list(\"Control vs Sulf\"=1, \"Fall vs Spring\"=2)))  } # }"},{"path":"/reference/cochran.eelworms.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"Counts eelworms fumigant treatments","code":""},{"path":"/reference/cochran.eelworms.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"data frame 48 observations following 7 variables. block block factor, 4 levels row row col column fumigant fumigant factor dose dose, Numeric 0,1,2.  Maybe factor? initial count eelworms pre-treatment final count eelworms post-treatment grain grain yield pounds straw straw yield pounds weeds ratio weeds total oats","code":""},{"path":"/reference/cochran.eelworms.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"soil fumigation experiment Spring Oats, conducted 1935. plot 30 links x 41.7 links, clear side   plot specific length. Treatment codes: Con = Control, Chl = Chlorodinitrobenzen, Cym =   Cymag, Car = Carbon Disulphide jelly, See = Seekay. Experiment conducted 1935 Rothamsted Experiment Station.    early March 400 grams soil (4 x 100g) sampled number   eelworm cysts counted.  Fumigants added soil, oats   sown later harvested.  October, plots   sampled final count cysts recorded. Rothamsted report concludes \"Car\" \"Cym\" produced higher   yields, due partly nitrogen fumigant, \"Chl\"   decreased yield.  fumigants reduced weeds. crop   'unusually weedy'. \"Car\" \"See\" decreased number eelworm   cysts soil. original data can found Rothamsted Report. report   notes position blocks field slightly different   shown. experiment plan shown Bailey (2008, p. 73), shows columns 9-11   shifted slightly upward. clear . Thanks U.Genschel identifying typo.","code":""},{"path":"/reference/cochran.eelworms.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"Cochran Cox, 1950.   Experimental Designs. Table 3.1.","code":""},{"path":"/reference/cochran.eelworms.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"R. . Bailey (2008).   Design Comparative Experiments. Cambridge. Experiments Rothamsted (1936).   Report 1935, Rothamsted Research. pp 174 - 193.   https://doi.org/10.23637/ERADOC-1-67","code":""},{"path":"/reference/cochran.eelworms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of eelworms before and after fumigant treatments — cochran.eelworms","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(cochran.eelworms)   dat <- cochran.eelworms    libs(lattice)   splom(dat[ , 5:10],         group=dat$fumigant, auto.key=TRUE,         main=\"cochran.eelworms\")      libs(desplot)   desplot(dat, fumigant~col*row, text=dose, flip=TRUE, cex=2)      # Very strong spatial trends   desplot(dat, initial ~ col*row,           flip=TRUE, # aspect unknown           main=\"cochran.eelworms\")     # final counts are strongly related to initial counts   libs(lattice)   xyplot(final~initial|factor(dose), data=dat, group=fumigant,          main=\"cochran.eelworms - by dose (panel) & fumigant\",          xlab=\"Initial worm count\",          ylab=\"Final worm count\", auto.key=list(columns=5))      # One approach...log transform, use 'initial' as covariate, create 9 treatments   dat <- transform(dat, trt=factor(paste0(fumigant, dose)))   m1 <- aov(log(final) ~ block + trt + log(initial), data=dat)   anova(m1)  } # }"},{"path":"/reference/cochran.factorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"Factorial experiment beans, 2x2x2x2.","code":""},{"path":"/reference/cochran.factorial.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"","code":"data(\"cochran.factorial\")"},{"path":"/reference/cochran.factorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"data frame 32 observations following 4 variables. rep rep factor block block factor trt treatment factor, 16 levels yield yield (pounds) d dung treatment, 2 levels n nitrogen treatment, 2 levels p phosphorous treatment, 2 levels k potassium treatment, 2 levels","code":""},{"path":"/reference/cochran.factorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"Conducted Rothamsted Experiment Station 1936. 4 treatment factors: 2 d dung levels: None, 10 tons/acre. 2 n nitrochalk levels: None, 0.4 hundredweight nitrogen per acre. 2 p superphosphate levels: None, 0.6 hundredweight per acre 2 k muriate potash levels: None, 1 hundredweight K20 per acres. response variable yield beans.","code":""},{"path":"/reference/cochran.factorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"Cochran, W.G. Cox, G.M. (1957),   Experimental Designs, 2nd ed., Wiley Sons, New York, p. 160.","code":""},{"path":"/reference/cochran.factorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of beans, 2x2x2x2 — cochran.factorial","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cochran.factorial) dat <- cochran.factorial  # Ensure factors dat <- transform(dat, d=factor(d), n=factor(n), p=factor(p), k=factor(k))  # Cochran table 6.5. m1 <- lm(yield ~ rep * block + (d+n+p+k)^3, data=dat) anova(m1)   libs(FrF2) aliases(m1) MEPlot(m1, select=3:6,        main=\"cochran.factorial - main effects plot\")  } # }"},{"path":"/reference/cochran.latin.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square design in wheat — cochran.latin","title":"Latin square design in wheat — cochran.latin","text":"Six wheat plots sampled six operators shoot heights   measured. operators sampled plots six ordered sequences.   dependent variate difference measured   height true height plot.","code":""},{"path":"/reference/cochran.latin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square design in wheat — cochran.latin","text":"data frame 36 observations following 4 variables. row row col column operator operator factor diff difference measured height true height","code":""},{"path":"/reference/cochran.latin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square design in wheat — cochran.latin","text":"Cochran, W.G. Cox, G.M. (1957),   Experimental Designs, 2nd ed., Wiley Sons, New York.","code":""},{"path":"/reference/cochran.latin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square design in wheat — cochran.latin","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cochran.latin) dat <- cochran.latin  libs(desplot) desplot(dat, diff~col*row,         text=operator, cex=1, # aspect unknown         main=\"cochran.latin\")   dat <- transform(dat, rf=factor(row), cf=factor(col)) aov.dat <- aov(diff ~ operator + Error(rf*cf), dat) summary(aov.dat) model.tables(aov.dat, type=\"means\") } # }"},{"path":"/reference/cochran.lattice.html","id":null,"dir":"Reference","previous_headings":"","what":"Balanced lattice experiment in cotton — cochran.lattice","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"Balanced lattice experiment cotton","code":""},{"path":"/reference/cochran.lattice.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"","code":"data(\"cochran.lattice\")"},{"path":"/reference/cochran.lattice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"data frame 80 observations following 5 variables. y percent affected flower buds rep replicate row row col column trt treatment factor","code":""},{"path":"/reference/cochran.lattice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"experiment balanced lattice square 16 treatments 4x4   layout 5 replicates.  treatments applied cotton   plants.  plot ten rows wide 70 feet long   (1/18 acre).  (Estimated plot width 34.5 feet.)   Data collected middle 4 rows.   data percentages squares showing attack boll weevils.   'square' name given young flower bud. plot orientation clear.","code":""},{"path":"/reference/cochran.lattice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"William G. Cochran, Gertrude M. Cox. Experimental Designs, 2nd   Edition. Page 490. Originally : F. M. Wadley (1946).   Incomplete block designs insect population problems.   J. Economic Entomology, 38, 651–654.","code":""},{"path":"/reference/cochran.lattice.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"Walter Federer.   Combining Standard Block Analyses Spatial Analyses Random   Effects Model. Cornell Univ Tech Report BU-1373-MA.   https://hdl.handle.net/1813/31971","code":""},{"path":"/reference/cochran.lattice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Balanced lattice experiment in cotton — cochran.lattice","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cochran.lattice) dat <- cochran.lattice  libs(desplot) desplot(dat, y~row*col|rep,         text=trt, # aspect unknown, should be 2 or .5          main=\"cochran.lattice\")   # Random rep,row,column model often used by Federer libs(lme4) dat <- transform(dat, rowf=factor(row), colf=factor(col)) m1 <-  lmer(y ~ trt + (1|rep) + (1|rep:row) + (1|rep:col), data=dat) summary(m1)  } # }"},{"path":"/reference/cochran.wireworms.html","id":null,"dir":"Reference","previous_headings":"","what":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"Wireworms controlled fumigants latin square","code":""},{"path":"/reference/cochran.wireworms.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"data frame 25 observations following 4 variables. row row col column trt fumigant treatment, 5 levels worms count wireworms per plot","code":""},{"path":"/reference/cochran.wireworms.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"Plots approximately 22 cm 13 cm.  Layout experiment   latin square.  number wireworms plot counted,   following soil fumigation previous year.","code":""},{"path":"/reference/cochran.wireworms.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"W. G. Cochran (1938).   difficulties statistical analysis replicated experiments.   Empire Journal Experimental Agriculture, 6, 157–175.","code":""},{"path":"/reference/cochran.wireworms.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"Ron Snee (1980). Graphical Display Means.   American Statistician, 34, 195-199.   https://www.jstor.org/stable/2684060   https://doi.org/10.1080/00031305.1980.10483028 W. Cochran (1940). analysis variance experimental errors   follow Poisson binomial laws.   Annals Mathematical Statistics, 11, 335-347.   https://www.jstor.org/stable/2235680 G W Snedecor W G Cochran, 1980. Statistical Methods,   Iowa State University Press.  Page 288.","code":""},{"path":"/reference/cochran.wireworms.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wireworms controlled by fumigants in a latin square — cochran.wireworms","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cochran.wireworms) dat <- cochran.wireworms  libs(desplot) desplot(dat, worms ~ col*row,         text=trt, cex=1, # aspect unknown         main=\"cochran.wireworms\")  # Trt K is effective, but not the others.  Really, this says it all. libs(lattice) bwplot(worms ~ trt, dat, main=\"cochran.wireworms\", xlab=\"Treatment\")  # Snedecor and Cochran do ANOVA on sqrt(x+1). dat <- transform(dat, rowf=factor(row), colf=factor(col)) m1 <- aov(sqrt(worms+1) ~ rowf + colf + trt, data=dat) anova(m1)  # Instead of transforming, use glm m2 <- glm(worms ~ trt + rowf + colf, data=dat, family=\"poisson\") anova(m2)  # GLM with random blocking. libs(lme4) m3 <- glmer(worms ~ -1 +trt +(1|rowf) +(1|colf), data=dat, family=\"poisson\") summary(m3) ## Fixed effects: ##      Estimate Std. Error z value Pr(>|z|)     ## trtK   0.1393     0.4275   0.326    0.745     ## trtM   1.7814     0.2226   8.002 1.22e-15 *** ## trtN   1.9028     0.2142   8.881  < 2e-16 *** ## trtO   1.7147     0.2275   7.537 4.80e-14 ***  } # }"},{"path":"/reference/connolly.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato yields in single-drill plots — connolly.potato","title":"Potato yields in single-drill plots — connolly.potato","text":"Potato yields single-drill plots","code":""},{"path":"/reference/connolly.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Potato yields in single-drill plots — connolly.potato","text":"","code":"data(\"connolly.potato\")"},{"path":"/reference/connolly.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato yields in single-drill plots — connolly.potato","text":"data frame 80 observations following 6 variables. rep block gen variety row row col column yield yield, kg/ha matur maturity group","code":""},{"path":"/reference/connolly.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato yields in single-drill plots — connolly.potato","text":"Connolly et el use data illustrate yield can affected   competition neighboring plots. data uses M1, M2, M3 maturity, Connolly et al use   FE (first early), SE (second early) M (maincrop). trial 20 sections, independent row 20   drills.  data four reps single-drill plots   sections 1, 6, 11, 16. neighbor covariate plot defined average   plots left right.  drills edge trial,   covariate average one neighboring plot yield   section (.e. rep) mean. interesting fit model uses differences   maturity plot neighbor actual covariate. https://doi.org/10.1111/j.1744-7348.1993.tb04099.x Used permission Iain Currie.","code":""},{"path":"/reference/connolly.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato yields in single-drill plots — connolly.potato","text":"Connolly, T Currie, ID Bradshaw, JE McNicol, JW. (1993).   Inter-plot competition yield trials potatoes   Solanum tuberosum L. single-drill plots.   Annals Applied Biology, 123, 367-377.","code":""},{"path":"/reference/connolly.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato yields in single-drill plots — connolly.potato","text":"","code":"library(agridat) data(connolly.potato) dat <- connolly.potato  # Field plan libs(desplot) desplot(dat, yield~col*row,         out1=rep, # aspect unknown         main=\"connolly.potato yields (reps not contiguous)\")    # Later maturities are higher yielding libs(lattice) bwplot(yield~matur, dat, main=\"connolly.potato yield by maturity\")   # Observed raw means. Matches Connolly table 2. mn <- aggregate(yield~gen, data=dat, FUN=mean) mn[rev(order(mn$yield)),] #>    gen  yield #> 8  V08 16.200 #> 19 V19 14.450 #> 10 V10 13.925 #> 12 V12 13.500 #> 7  V07 13.300 #> 20 V20 12.975 #> 14 V14 12.975 #> 6  V06 12.625 #> 11 V11 12.575 #> 16 V16 11.900 #> 3  V03 11.650 #> 9  V09 11.500 #> 1  V01 11.275 #> 18 V18 10.650 #> 2  V02 10.325 #> 17 V17 10.200 #> 15 V15 10.125 #> 13 V13 10.050 #> 4  V04  9.425 #> 5  V05  9.275  # Create a covariate which is the average of neighboring plot yields libs(reshape2) mat <- acast(dat, row~col, value.var='yield') mat2 <- matrix(NA, nrow=4, ncol=20) mat2[,2:19] <- (mat[ , 1:18] + mat[ , 3:20])/2 mat2[ , 1] <- (mat[ , 1] + apply(mat, 1, mean))/2 mat2[ , 20] <- (mat[ , 20] + apply(mat, 1, mean))/2 dat2 <- melt(mat2) colnames(dat2) <- c('row','col','cov') dat <- merge(dat, dat2) # xyplot(yield ~ cov, data=dat, type=c('p','r'))  # Connolly et al fit a model with avg neighbor yield as a covariate m1 <- lm(yield ~ 0 + gen + rep + cov, data=dat) coef(m1)['cov'] # = -.303  (Connolly obtained -.31) #>        cov  #> -0.3030545   # Block names and effects bnm <- c(\"R1\",\"R2\",\"R3\",\"R4\") beff <- c(0, coef(m1)[c('repR2','repR3','repR4')]) # Variety names and effects vnm <- paste0(\"V\", formatC(1:20, width=2, flag='0')) veff <- coef(m1)[1:20]  # Adjust yield for variety and block effects dat <- transform(dat, yadj = yield - beff[match(rep,bnm)]                 - veff[match(gen,vnm)])  # Similar to Connolly Fig 1.  Point pattern doesn't quite match xyplot(yadj~cov, data=dat, type=c('p','r'),        main=\"connolly.potato\",        xlab=\"Avg yield of nearest neighbors\",        ylab=\"Yield, adjusted for variety and block effects\")"},{"path":"/reference/coombs.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"Uniformity trial rice Malaysia","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"","code":"data(\"coombs.rice.uniformity\")"},{"path":"/reference/coombs.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"data frame 54 observations following 3 variables. row row col column yield yield gantangs per plot","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"Estimated harvest date 1915 earlier. Field length, 18 plots * 1/2 chain. Field width, 3 plots * 1/2 chain.","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"Coombs, G. E. J. Grantham (1916).   Field Experiments Interpretation results.   Agriculture Bulletin Federated Malay States, 7.   https://www.google.com/books/edition/The_Agricultural_Bulletin_of_the_Federat/M2E4AQAAMAAJ","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"None","code":""},{"path":"/reference/coombs.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice in Malaysia — coombs.rice.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(coombs.rice.uniformity)   dat <- coombs.rice.uniformity    # Data check. Matches Coombs 709.4   # sum(dat$yield)    # There are an excess number of 12s and 14s in the yield   libs(lattice)   qqmath( ~ yield, dat) # weird      libs(desplot)   desplot(dat, yield ~ col*row,           main=\"coombs.rice.uniformity\",           flip=TRUE, aspect=(18 / 3)) } # }"},{"path":"/reference/cornelius.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"Maize yields 9 cultivars 20 locations.","code":""},{"path":"/reference/cornelius.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"","code":"data(\"cornelius.maize\")"},{"path":"/reference/cornelius.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"data frame 180 observations following 3 variables. env environment factor, 20 levels gen genotype/cultivar, 9 levels yield yield, kg/ha","code":""},{"path":"/reference/cornelius.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"Cell means (kg/hectare) CIMMYT EVT16B maize yield trial.","code":""},{"path":"/reference/cornelius.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"P L Cornelius J Crossa M S Seyedsadr. (1996).   Statistical Tests Estimators Multiplicative Models   Genotype--Environment Interaction.   Book: Genotype--Environment Interaction. Pages 199-234.","code":""},{"path":"/reference/cornelius.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"Forkman, Johannes Piepho, Hans-Peter. (2014).   Parametric bootstrap methods testing multiplicative terms GGE   AMMI models. Biometrics, 70(3), 639-647.   https://doi.org/10.1111/biom.12162","code":""},{"path":"/reference/cornelius.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize for 9 cultivars at 20 locations. — cornelius.maize","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cornelius.maize) dat <- cornelius.maize  # dotplot(gen~yield|env,dat) # We cannot compare genotype yields easily # Subtract environment mean from each observation libs(reshape2) mat <- acast(dat, gen~env) mat <- scale(mat, scale=FALSE) dat2 <- melt(mat) names(dat2) <- c('gen','env','yield') libs(lattice) bwplot(yield ~ gen, dat2,        main=\"cornelius.maize - environment centered yields\")  if(0){ # This reproduces the analysis of Forkman and Piepho.  test.pc <- function(Y0, type=\"AMMI\", n.boot=10000, maxpc=6) {    # Test the significance of Principal Components in GGE/AMMI    # Singular value decomposition of centered/double-centered Y   Y <- sweep(Y0, 1, rowMeans(Y0)) # subtract environment means   if(type==\"AMMI\") {     Y <- sweep(Y, 2, colMeans(Y0)) # subtract genotype means     Y <- Y + mean(Y0)   }   lam <- svd(Y)$d    # Observed value of test statistic.   # t.obs[k] is the proportion of variance explained by the kth term out of   # the k...M terms, e.g. t.obs[2] is lam[2]^2 / sum(lam[2:M]^2)   t.obs <- { lam^2/rev(cumsum(rev(lam^2))) } [1:(M-1)]   t.boot <- matrix(NA, nrow=n.boot, ncol=M-1)    # Centering rows/columns reduces the rank by 1 in each direction.   I <- if(type==\"AMMI\") nrow(Y0)-1 else nrow(Y0)   J <- ncol(Y0)-1   M <- min(I, J) # rank of Y, maximum number of components   M <- min(M, maxpc) # Optional step: No more than 5 components    for(K in 0:(M-2)){ # 'K' multiplicative components in the svd      for(bb in 1:n.boot){       E.b <- matrix(rnorm((I-K) * (J-K)), nrow = I-K, ncol = J-K)       lam.b <- svd(E.b)$d       t.boot[bb, K+1] <- lam.b[1]^2 / sum(lam.b^2)     }    }    # P-value for each additional multiplicative term in the SVD.   # P-value is the proportion of time bootstrap values exceed t.obs   colMeans(t.boot > matrix(rep(t.obs, n.boot), nrow=n.boot, byrow=TRUE)) }  dat <- cornelius.maize  # Convert to matrix format libs(reshape2) dat <- acast(dat, env~gen, value.var='yield')  ## R> test.pc(dat,\"AMMI\") ## [1] 0.0000 0.1505 0.2659 0.0456 0.1086 # Forkman: .00 .156 .272 .046 .111  ## R> test.pc(dat,\"GGE\") ## [1] 0.0000 0.2934 0.1513 0.0461 0.2817 # Forkman: .00 .296 .148 .047 .285  } } # }"},{"path":"/reference/corsten.interaction.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn — corsten.interaction","title":"Multi-environment trial of corn — corsten.interaction","text":"data yield (kg/acre) 20 genotypes corn 7   locations.","code":""},{"path":"/reference/corsten.interaction.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn — corsten.interaction","text":"data frame 140 observations following 3 variables. gen genotype, 20 levels loc location, 7 levels yield yield, kg/acre","code":""},{"path":"/reference/corsten.interaction.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn — corsten.interaction","text":"data used Corsten & Denis (1990) illustrate two-way   clustering minimizing interaction sum squares. paper, labels location dendrogram slight   typo.  order loc labels shown 1 2 3 4 5 6 7.   correct order loc labels 1 2 4 5 6 7 3. Used permission Jean-Baptiste Denis.","code":""},{"path":"/reference/corsten.interaction.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn — corsten.interaction","text":"L C Corsten J B Denis, (1990).   Structuring Interaction Two-Way Tables Clustering.   Biometrics, 46, 207–215. Table 1.   https://doi.org/10.2307/2531644","code":""},{"path":"/reference/corsten.interaction.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn — corsten.interaction","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(corsten.interaction) dat <- corsten.interaction  libs(reshape2) m1 <- melt(dat, measure.var='yield') dmat <- acast(m1, loc~gen)  # Corsten (1990) uses this data to illustrate simultaneous row and # column clustering based on interaction sums-of-squares. # There is no (known) function in R to reproduce this analysis # (please contact the package maintainer if this is not true). # For comparison, the 'heatmap' function clusters the rows and # columns _independently_ of each other. heatmap(dmat, main=\"corsten.interaction\")  } # }"},{"path":"/reference/cox.stripsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"Strip-split-plot barley fertilizer, calcium, soil factors.","code":""},{"path":"/reference/cox.stripsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"data frame 96 observations following 5 variables. rep replicate, 4 levels soil soil, 3 levels fert fertilizer, 4 levels calcium calcium, 2 levels yield yield winter barley","code":""},{"path":"/reference/cox.stripsplit.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"Four different fertilizer treatments laid vertical   strips, split subplots different levels   calcium. Soil type stripped across split-plot experiment,   entire experiment replicated three times. Sometimes called split-block design.","code":""},{"path":"/reference/cox.stripsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"Comes notes Gertrude Cox . Rotti.","code":""},{"path":"/reference/cox.stripsplit.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"SAS/STAT(R) 9.2 User's Guide, Second Edition.   Example 23.5 Strip-Split Plot.   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm#statug_anova_sect030.htm","code":""},{"path":"/reference/cox.stripsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Strip-split-plot of barley with fertilizer, calcium, and soil factors. — cox.stripsplit","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(cox.stripsplit) dat <- cox.stripsplit  # Raw means # aggregate(yield ~ calcium, data=dat, mean) # aggregate(yield ~ soil, data=dat, mean) # aggregate(yield ~ calcium, data=dat, mean)  libs(HH) interaction2wt(yield ~ rep + soil + fert + calcium, dat,                x.between=0, y.between=0,                main=\"cox.stripsplit\")  # Traditional AOV m1 <- aov(yield~ fert*calcium*soil +           Error(rep/(fert+soil+calcium:fert+soil:fert)),           data=dat) summary(m1)  # With balanced data, the following are all basically identical  libs(lme4) # The 'rep:soil:fert' term causes problems...so we drop it. m2 <- lmer(yield ~ fert*soil*calcium + (1|rep) + (1|rep:fert) +              (1|rep:soil) + (1|rep:fert:calcium), data=dat)   if(0){   # afex uses Kenword-Rogers approach for denominator d.f.   libs(afex)   mixed(yield ~ fert*soil*calcium + (1|rep) + (1|rep:fert) +           (1|rep:soil) + (1|rep:fert:calcium) + (1|rep:soil:fert), data=dat,         control=lmerControl(check.nobs.vs.rankZ=\"ignore\"))   ##              Effect      stat ndf     ddf F.scaling p.value   ## 1       (Intercept) 1350.8113   1  3.0009         1  0.0000   ## 2              fert    3.5619   3  9.0000         1  0.0604   ## 3              soil    3.4659   2  6.0000         1  0.0999   ## 4           calcium    1.8835   1 12.0000         1  0.1950   ## 5         fert:soil    1.2735   6 18.0000         1  0.3179   ## 6      fert:calcium    4.4457   3 12.0000         1  0.0255   ## 7      soil:calcium    0.2494   2 24.0000         1  0.7813   ## 8 fert:soil:calcium    0.3504   6 24.0000         1  0.9027 }  } # }"},{"path":"/reference/cramer.cucumber.html","id":null,"dir":"Reference","previous_headings":"","what":"Cucumber yields and quantitative traits — cramer.cucumber","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"Cucumber yields quantitative traits","code":""},{"path":"/reference/cramer.cucumber.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"","code":"data(\"cramer.cucumber\")"},{"path":"/reference/cramer.cucumber.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"data frame 24 observations following 9 variables. cycle cycle rep replicate plants plants per plot flowers number pistillate flowers branches number branches leaves number leaves totalfruit total fruit number culledfruit culled fruit number earlyfruit early fruit number","code":""},{"path":"/reference/cramer.cucumber.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"data used illustrate path analysis correlations   phenotypic traits. Used permission Christopher Cramer.","code":""},{"path":"/reference/cramer.cucumber.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"Christopher S. Cramer, Todd C. Wehner, Sandra B. Donaghy. 1999.   Path Coefficient Analysis Quantitative Traits.   : Handbook Formulas Software Plant Geneticists   Breeders, page 89.","code":""},{"path":"/reference/cramer.cucumber.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"Cramer, C. S., T. C. Wehner, S. B. Donaghy. 1999.   PATHSAS: SAS computer program path coefficient analysis quantitative data.   J. Hered, 90, 260-262   https://doi.org/10.1093/jhered/90.1.260","code":""},{"path":"/reference/cramer.cucumber.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Cucumber yields and quantitative traits — cramer.cucumber","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(cramer.cucumber)   dat <- cramer.cucumber    libs(lattice)   splom(dat[3:9], group=dat$cycle,         main=\"cramer.cucumber - traits by cycle\",         auto.key=list(columns=3))     # derived traits   dat <- transform(dat,                    marketable = totalfruit-culledfruit,                    branchesperplant = branches/plants,                    nodesperbranch = leaves/(branches+plants),                    femalenodes = flowers+totalfruit)   dat <- transform(dat,                    perfenod = (femalenodes/leaves),                    fruitset = totalfruit/flowers,                    fruitperplant = totalfruit / plants,                    marketableperplant = marketable/plants,                    earlyperplant=earlyfruit/plants)   # just use cycle 1   dat1 <- subset(dat, cycle==1)    # define independent and dependent variables   indep <- c(\"branchesperplant\", \"nodesperbranch\", \"perfenod\", \"fruitset\")   dep0 <- \"fruitperplant\"   dep <- c(\"marketable\",\"earlyperplant\")    # standardize trait data for cycle 1   sdat <- data.frame(scale(dat1[1:8, c(indep,dep0,dep)]))    # slopes for dep0 ~ indep   X <- as.matrix(sdat[,indep])   Y <- as.matrix(sdat[,c(dep0)])   # estdep <- solve(t(X)    estdep <- solve(crossprod(X), crossprod(X,Y))   estdep   ## branchesperplant 0.7160269   ## nodesperbranch   0.3415537   ## perfenod         0.2316693   ## fruitset         0.2985557    # slopes for dep ~ dep0   X <- as.matrix(sdat[,dep0])   Y <- as.matrix(sdat[,c(dep)])   # estind2 <- solve(t(X)    estind2 <- solve(crossprod(X), crossprod(X,Y))   estind2   ##  marketable earlyperplant   ##     0.97196     0.8828393    # correlation coefficients for indep variables   corrind=cor(sdat[,indep])   round(corrind,2)   ##                  branchesperplant nodesperbranch perfenod fruitset   ## branchesperplant             1.00           0.52    -0.24     0.09   ## nodesperbranch               0.52           1.00    -0.44     0.14   ## perfenod                    -0.24          -0.44     1.00     0.04   ## fruitset                     0.09           0.14     0.04     1.00    # Correlation coefficients for dependent variables   corrdep=cor(sdat[,c(dep0, dep)])   round(corrdep,2)   ##               fruitperplant marketable earlyperplant   ## fruitperplant          1.00       0.97          0.88   ## marketable             0.97       1.00          0.96   ## earlyperplant          0.88       0.96          1.00    result = corrind   result = result*matrix(estdep,ncol=4,nrow=4,byrow=TRUE)   round(result,2) # match SAS output columns 1-4   ##                  branchesperplant nodesperbranch perfenod fruitset   ## branchesperplant             0.72           0.18    -0.06     0.03   ## nodesperbranch               0.37           0.34    -0.10     0.04   ## perfenod                    -0.17          -0.15     0.23     0.01   ## fruitset                     0.07           0.05     0.01     0.30    resdep0 = rowSums(result)   resdep <- cbind(resdep0,resdep0)*matrix(estind2, nrow=4,ncol=2,byrow=TRUE)   colnames(resdep) <- dep   # slightly different from SAS output last 2 columns   round(cbind(fruitperplant=resdep0, round(resdep,2)),2)   ##                  fruitperplant marketable earlyperplant   ## branchesperplant          0.87       0.84          0.76   ## nodesperbranch            0.65       0.63          0.58   ## perfenod                 -0.08      -0.08         -0.07   ## fruitset                  0.42       0.41          0.37 } # }"},{"path":"/reference/crampton.pig.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight gain in pigs for different treatments — crampton.pig","title":"Weight gain in pigs for different treatments — crampton.pig","text":"Weight gain pigs different treatments, initial weight   feed eaten covariates.","code":""},{"path":"/reference/crampton.pig.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Weight gain in pigs for different treatments — crampton.pig","text":"","code":"data(\"crampton.pig\")"},{"path":"/reference/crampton.pig.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight gain in pigs for different treatments — crampton.pig","text":"data frame 50 observations following 5 variables. treatment feed treatment rep replicate weight1 initial weight feed feed eaten weight2 final weight","code":""},{"path":"/reference/crampton.pig.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Weight gain in pigs for different treatments — crampton.pig","text":"study effect initial weight feed eaten weight   gaining ability pigs different feed treatments. data extracted Ostle. clear 'replicate'   actually blocking replicate opposed repeated measurement.   original source document needs consulted.","code":""},{"path":"/reference/crampton.pig.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight gain in pigs for different treatments — crampton.pig","text":"Crampton, EW Hopkins, JW. (1934).   Use Method Partial Regression Analysis Comparative Feeding Trial Data, Part II.   Journal Nutrition, 8, 113-123.   https://doi.org/10.1093/jn/8.3.329","code":""},{"path":"/reference/crampton.pig.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight gain in pigs for different treatments — crampton.pig","text":"Bernard Ostle. Statistics Research, Page 458.   https://archive.org/details/secondeditionsta001000mbp Goulden (1939). Methods Statistical Analysis, 1st ed. Page 256-259.   https://archive.org/details/methodsofstatist031744mbp","code":""},{"path":"/reference/crampton.pig.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight gain in pigs for different treatments — crampton.pig","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)    data(crampton.pig)   dat <- crampton.pig    dat <- transform(dat, gain=weight2-weight1)   libs(lattice)   # Trt 4 looks best   xyplot(gain ~ feed, dat, group=treatment, type=c('p','r'),          auto.key=list(columns=5),          xlab=\"Feed eaten\", ylab=\"Weight gain\", main=\"crampton.pig\")      # Basic Anova without covariates   m1 <- lm(weight2 ~ treatment + rep, data=dat)   anova(m1)   # Add covariates   m2 <- lm(weight2 ~ treatment + rep + weight1 + feed, data=dat)   anova(m2)   # Remove treatment, test this nested model for significant treatments   m3 <- lm(weight2 ~ rep + weight1 + feed, data=dat)   anova(m2,m3) # p-value .07. F=2.34 matches Ostle } # }"},{"path":"/reference/crossa.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Wheat yields 18 genotypes 25 locations","code":""},{"path":"/reference/crossa.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"data frame 450 observations following 3 variables. loc location locgroup location group: Grp1-Grp2 gen genotype gengroup genotype group: W1, W2, W3 yield grain yield, tons/ha","code":""},{"path":"/reference/crossa.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Grain yield 8th Elite Selection Wheat Yield Trial evaluate   18 bread wheat genotypes 25 locations 15 countries. Cross et al. used data cluster loctions 2   mega-environments clustered genotypes 3 wheat clusters. Locations Used permission Jose' Crossa.","code":""},{"path":"/reference/crossa.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Crossa, J Fox, PN Pfeiffer, WH Rajaram, S Gauch Jr,   HG. (1991).   AMMI adjustment statistical analysis   international wheat yield trial.   Theoretical Applied Genetics, 81, 27–37.   https://doi.org/10.1007/BF00226108","code":""},{"path":"/reference/crossa.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"Jean-Louis Laffont, Kevin Wright Mohamed Hanafi (2013).   Genotype + Genotype x Block Environments (GGB) Biplots.   Crop Science, 53, 2332-2341.   https://doi.org/10.2135/cropsci2013.03.0178","code":""},{"path":"/reference/crossa.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat for 18 genotypes at 25 locations — crossa.wheat","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(crossa.wheat)   dat <- crossa.wheat      # AMMI biplot.  Fig 3 of Crossa et al.   libs(agricolae)   m1 <- with(dat, AMMI(E=loc, G=gen, R=1, Y=yield))   b1 <- m1$biplot[,1:4]   b1$PC1 <- -1 * b1$PC1 # Flip vertical   plot(b1$yield, b1$PC1, cex=0.0,        text(b1$yield, b1$PC1, cex=.5, labels=row.names(b1),col=\"brown\"),        main=\"crossa.wheat AMMI biplot\",        xlab=\"Average yield\", ylab=\"PC1\", frame=TRUE)   mn <- mean(b1$yield)   abline(h=0, v=mn, col='wheat')    g1 <- subset(b1,type==\"GEN\")   text(g1$yield, g1$PC1, rownames(g1), col=\"darkgreen\", cex=.5)      e1 <- subset(b1,type==\"ENV\")   arrows(mn, 0,          0.95*(e1$yield - mn) + mn, 0.95*e1$PC1,          col= \"brown\", lwd=1.8,length=0.1)      # GGB example   library(agridat)   data(crossa.wheat)   dat2 <- crossa.wheat   libs(gge)   # Specify env.group as column in data frame   m2 <- gge(dat2, yield~gen*loc,             env.group=locgroup, gen.group=gengroup,             scale=FALSE)   biplot(m2, main=\"crossa.wheat - GGB biplot\")    } # }"},{"path":"/reference/crowder.seeds.html","id":null,"dir":"Reference","previous_headings":"","what":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"Number Orobanche seeds tested/germinated two genotypes   two treatments.","code":""},{"path":"/reference/crowder.seeds.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"plate Factor replication gen Factor genotype levels O73, O75 extract Factor extract bean, cucumber germ Number seeds germinated n Total number seeds tested","code":""},{"path":"/reference/crowder.seeds.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"Egyptian broomrape, orobanche aegyptiaca parasitic plant   family.  plants chlorophyll grow roots   plants.  seeds remain dormant soil certain compounds   living plants stimulate germination. Two genotypes studied experiment, O. aegyptiaca 73   O. aegyptiaca 75.  seeds brushed one two   extracts prepared either bean plant cucmber plant. experimental design 2x2 factorial, 5 6 reps   plates.","code":""},{"path":"/reference/crowder.seeds.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"Crowder, M.J., 1978.   Beta-binomial anova proportions.   Appl. Statist., 27, 34-37.   https://doi.org/10.2307/2346223","code":""},{"path":"/reference/crowder.seeds.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"N. E. Breslow D. G. Clayton. 1993.   Approximate inference generalized linear mixed models.   Journal American Statistical Association, 88:9-25.   https://doi.org/10.2307/2290687 Y. Lee J. . Nelder. 1996.   Hierarchical generalized linear models discussion.   J. R. Statist. Soc. B, 58:619-678.","code":""},{"path":"/reference/crowder.seeds.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Germination of Orobanche seeds for two genotypes and two treatments. — crowder.seeds","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(crowder.seeds)   dat <- crowder.seeds   m1.glm <- m1.glmm <- m1.glmmtmb <- m1.hglm <- NA     # ----- Graphic   libs(lattice)   dotplot(germ/n~gen|extract, dat, main=\"crowder.seeds\")     # --- GLMM.  Assumes Gaussian random effects   libs(MASS)   m1.glmm <- glmmPQL(cbind(germ, n-germ) ~ gen*extract, random= ~1|plate,                      family=binomial(), data=dat)   summary(m1.glmm)   ## round(summary(m1.glmm)$tTable,2)   ##                        Value Std.Error DF t-value p-value   ## (Intercept)            -0.44      0.25 17   -1.80    0.09   ## genO75                 -0.10      0.31 17   -0.34    0.74   ## extractcucumber         0.52      0.34 17    1.56    0.14   ## genO75:extractcucumber  0.80      0.42 17    1.88    0.08     # ----- glmmTMB   libs(glmmTMB)   m1.glmmtmb <- glmmTMB(cbind(germ, n-germ) ~ gen*extract + (1|plate),                         data=dat,                         family=binomial)   summary(m1.glmmtmb)   ## round(summary(m1.glmmtmb)$coefficients$cond , 2)   ##                        Estimate Std. Error z value Pr(>|z|)   ## (Intercept)               -0.45       0.22   -2.03     0.04   ## genO75                    -0.10       0.28   -0.35     0.73   ## extractcucumber            0.53       0.30    1.74     0.08   ## genO75:extractcucumber     0.81       0.38    2.11     0.04   } # }"},{"path":"/reference/cullis.earlygen.html","id":null,"dir":"Reference","previous_headings":"","what":"Early generation variety trial in wheat — cullis.earlygen","title":"Early generation variety trial in wheat — cullis.earlygen","text":"Early generation variety trial wheat","code":""},{"path":"/reference/cullis.earlygen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Early generation variety trial in wheat — cullis.earlygen","text":"data frame 670 observations following 5 variables. gen genotype factor row row col column entry entry (genotype) number yield yield plot, kg/ha weed weed score","code":""},{"path":"/reference/cullis.earlygen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Early generation variety trial in wheat — cullis.earlygen","text":"data field experiment conducted Tullibigeal, New   South Wales, Australia 1987-88. aim trials   identify retain top (10-20 percent) lines   testing. genotypes unreplicated, augmented genotypes.   row, every 6th plot variety 526 = 'Kite'.   Six varieties 527-532 randomly placed trial, 3   5 plots .   plot 15m x 1.8m, \"oriented longest side rows\". 'weed' variable visual score 0 10 scale, 0 =   weeds, 10 = 100 percent weeds. Cullis et al. (1989) presented analysis early generation variety   trials included one-dimensional spatial analysis.  ,   two-dimensional spatial analysis presented. Note: 'row' 'col' variables VSN link (switched   compared paper Cullis et al.) Field width: 10 rows * 15 m = 150 m Field length: 67 plots * 1.8 m  = 121 m orientation certain, alternative orientation   field roughly 20m x 1000m, seems unlikely.","code":""},{"path":"/reference/cullis.earlygen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Early generation variety trial in wheat — cullis.earlygen","text":"Brian R. Cullis, Warwick J. Lill, John . Fisher, Barbara J. Read   Alan C. Gleeson (1989).   New Procedure Analysis Early Generation Variety Trials.   Journal Royal Statistical Society. Series C (Applied     Statistics), 38, 361-375.   https://doi.org/10.2307/2348066","code":""},{"path":"/reference/cullis.earlygen.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Early generation variety trial in wheat — cullis.earlygen","text":"Unreplicated early generation variety trial Wheat.   https://www.vsni.co.uk/software/asreml/htmlhelp/asreml/xwheat.htm","code":""},{"path":"/reference/cullis.earlygen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Early generation variety trial in wheat — cullis.earlygen","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(cullis.earlygen)   dat <- cullis.earlygen    # Show field layout of checks.  Cullis Table 1.   dat$check <- ifelse(dat$entry < 8, dat$entry, NA)   libs(desplot)   desplot(dat, check ~ col*row,           num=entry, cex=0.5, flip=TRUE, aspect=121/150, # true aspect           main=\"cullis.earlygen (yield)\")    desplot(dat, yield ~ col*row,           num=\"check\", cex=0.5, flip=TRUE, aspect=121/150, # true aspect           main=\"cullis.earlygen (yield)\")    grays <- colorRampPalette(c(\"white\",\"#252525\"))   desplot(dat, weed ~ col*row,           at=0:6-0.5, col.regions=grays(7)[-1],           flip=TRUE, aspect=121/150, # true aspect           main=\"cullis.earlygen (weed)\")    libs(lattice)   bwplot(yield ~ as.character(weed), dat,          horizontal=FALSE,          xlab=\"Weed score\", main=\"cullis.earlygen\")    # Moving Grid   libs(mvngGrAd)   shape <- list(c(1),                 c(1),                 c(1:4),                 c(1:4))   # sketchGrid(10,10,20,20,shapeCross=shape, layers=1, excludeCenter=TRUE)   m0 <- movingGrid(rows=dat$row, columns=dat$col, obs=dat$yield,                    shapeCross=shape, layers=NULL)   dat$mov.avg <- fitted(m0)    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)      # Start with the standard AR1xAR1 analysis     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf),]     m2 <- asreml(yield ~ weed, data=dat, random= ~gen,                  resid = ~ ar1(xf):ar1(yf))          # Variogram suggests a polynomial trend     m3 <- update(m2, fixed= yield~weed+pol(col,-1))          # Now add a nugget variance     m4 <- update(m3, random= ~ gen + units)          lucid::vc(m4)     ##       effect component std.error z.ratio bound      ##          gen  73780    10420         7.1     P 0       ##        units  30440     8073         3.8     P 0.1     ##     xf:yf(R)  54730    10630         5.1     P 0       ## xf:yf!xf!cor      0.38     0.115     3.3     U 0       ## xf:yf!yf!cor      0.84     0.045    19       U 0            ## # Predictions from models m3 and m4 are non-estimable.  Why?     ## # Use model m2 for predictions     ## predict(m2, classify=\"gen\")$pvals     ## ##         gen predicted.value std.error    status     ## ## 1     Banks        2723.534  93.14719 Estimable     ## ## 2    Eno008        2981.056 162.85241 Estimable     ## ## 3    Eno009        2978.008 161.57129 Estimable     ## ## 4    Eno010        2821.399 153.96943 Estimable     ## ## 5    Eno011        2991.612 161.53507 Estimable               ## # Compare AR1 with Moving Grid     ## dat$ar1 <- fitted(m2)     ## head(dat[ , c('yield','ar1','mov.avg')])     ## ##    yield      ar1       mg     ## ## 1   2652 2467.980 2531.998     ## ## 11  3394 3071.681 3052.160     ## ## 21  3148 2826.188 2807.031     ## ## 31  3426 3026.985 3183.649     ## ## 41  3555 3070.102 3195.910     ## ## 51  3453 3006.352 3510.511     ## pairs(dat[ , c('yield','ar1','mg')])   }    } # }"},{"path":"/reference/damesa.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"Incomplete-block experiment maize Ethiopia.","code":""},{"path":"/reference/damesa.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"","code":"data(\"damesa.maize\")"},{"path":"/reference/damesa.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"data frame 264 observations following 8 variables. site site, 4 levels rep replicate, 3 levels block incomplete block plot plot number gen genotype, 22 levels row row ordinate col column ordinate yield yield, t/ha","code":""},{"path":"/reference/damesa.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"experiment harvested 2012, evaluating drought-tolerant maize   hybrids 4 sites Ethiopia.   site, incomplete-block design used. Damesa et al use data compare single-stage two-stage   analyses.","code":""},{"path":"/reference/damesa.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"Tigist Mideksa Damesa, Jens Möhring, Mosisa Worku, Hans-Peter Piepho (2017).   One Step Time: Stage-Wise Analysis Series Experiments.   Agronomy J, 109, 845-857.   https://doi.org/10.2134/agronj2016.07.0395","code":""},{"path":"/reference/damesa.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"None","code":""},{"path":"/reference/damesa.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Incomplete-block experiment of maize in Ethiopia. — damesa.maize","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(damesa.maize)   libs(desplot)   desplot(damesa.maize,           yield ~ col*row|site,           main=\"damesa.maize\",           out1=rep, out2=block, num=gen, cex=1)    if(require(\"asreml\", quietly=TRUE)) {     # Fit the single-stage model in Damesa     libs(asreml,lucid)     m0 <- asreml(data=damesa.maize,                  fixed = yield ~ gen,                  random = ~ site + gen:site + at(site):rep/block,                  residual = ~ dsum( ~ units|site) )     lucid::vc(m0) # match Damesa table 1 column 3     ##                 effect component std.error z.ratio bound      ##       at(site, S1):rep   0.08819   0.1814     0.49     P 0       ##       at(site, S2):rep   1.383     1.426      0.97     P 0       ##       at(site, S3):rep   0              NA      NA     B 0       ##       at(site, S4):rep   0.01442   0.02602    0.55     P 0       ##                   site  10.45      8.604      1.2      P 0.1     ##               gen:site   0.1054    0.05905    1.8      P 0.1     ## at(site, S1):rep:block   0.3312    0.3341     0.99     P 0       ## at(site, S2):rep:block   0.4747    0.1633     2.9      P 0       ## at(site, S3):rep:block   0              NA      NA     B 0       ## at(site, S4):rep:block   0.06954   0.04264    1.6      P 0       ##              site_S1!R   1.346     0.3768     3.6      P 0       ##              site_S2!R   0.1936    0.06628    2.9      P 0       ##              site_S3!R   1.153     0.2349     4.9      P 0       ##              site_S4!R   0.1112    0.03665    3        P 0     }    } # }"},{"path":"/reference/darwin.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"Darwin's maize data crossed/inbred plant heights.","code":""},{"path":"/reference/darwin.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"data frame 30 observations following 4 variables. pot Pot factor, 4 levels pair Pair factor, 12 levels type Type factor, self-pollinated, cross-pollinated height Height, inches (measured 1/8 inch)","code":""},{"path":"/reference/darwin.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"Charles Darwin, 1876, reported data experiment   conducted heights corn plants.    seeds came parents, seeds produced   self-fertilized parents seeds produced   cross-fertilized parents.  Pairs seeds planted pots.   Darwin hypothesized cross-fertilization produced produced   robust vigorous offspring. Darwin wrote, \"long doubted whether worth give  measurements separate plant, decided ,  order may seen superiority crossed plants  self-fertilised, commonly depend presence  two three extra fine plants one side, poor  plants side. Although several observers insisted  general terms offspring intercrossed varieties  superior either parent-form, precise measurements  given;* met observations effects crossing  self-fertilising individuals variety. Moreover,  experiments kind require much time–mine  continued eleven years–likely soon  repeated.\" Darwin asked cousin Francis Galton help understanding   data.  Galton modern statistical methods approach   problem said, \"doubt, making many tests, whether   possible derive useful conclusions observations.    least 50 plants case, order   position deduce fair results\". Later, R. . Fisher used Darwin's data book design   experiments showed t-test exhibits significant difference   two groups.","code":""},{"path":"/reference/darwin.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"Darwin, C. R. 1876. effects cross self fertilisation   vegetable kingdom. London: John Murray. Page 16.   https://darwin-online.org.uk/converted/published/1881_Worms_F1357/1876_CrossandSelfFertilisation_F1249/1876_CrossandSelfFertilisation_F1249.html","code":""},{"path":"/reference/darwin.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"R. . Fisher, (1935) Design Experiments,  Oliver Boyd. Page 30.","code":""},{"path":"/reference/darwin.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Darwin's maize data of crossed/inbred plant heights — darwin.maize","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(darwin.maize) dat <- darwin.maize  # Compare self-pollination with cross-pollination libs(lattice) bwplot(height~type, dat, main=\"darwin.maize\")    libs(reshape2)   dm <- melt(dat)   d2 <- dcast(dm, pot+pair~type)   d2$diff <- d2$cross-d2$self   t.test(d2$diff)   ##   One Sample t-test   ## t = 2.148, df = 14, p-value = 0.0497   ## alternative hypothesis: true mean is not equal to 0   ## 95 percent confidence interval:   ##  0.003899165 5.229434169  } # }"},{"path":"/reference/dasilva.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize — dasilva.maize","title":"Multi-environment trial of maize — dasilva.maize","text":"Multi-environment trial maize 3 reps.","code":""},{"path":"/reference/dasilva.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize — dasilva.maize","text":"","code":"data(\"dasilva.maize\")"},{"path":"/reference/dasilva.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize — dasilva.maize","text":"data frame 1485 observations following 4 variables. env environment rep replicate block, 3 per env gen genotype yield yield (tons/hectare)","code":""},{"path":"/reference/dasilva.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize — dasilva.maize","text":"location 3 blocks. Block numbers unique across   environments. NOTE! environment codes supplemental data file da Silva   2015 quite match environment codes paper,   mostly 1. DaSilva Table 1 footnote \"Machado et al 2007\". reference   appears : Machado et al.   Estabilidade de producao de hibridos simples e duplos de milhooriundos   de um mesmo conjunto genico.   Bragantia, 67, 3. www.scielo.br/pdf/brag/v67n3/a10v67n3.pdf DaSilva Table 1, mean E1 10.803.  appears   copy mean row 1 Table 1 Machado. Using   supplemental data paper, correct mean 8.685448.","code":""},{"path":"/reference/dasilva.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize — dasilva.maize","text":"Bayesian Shrinkage Approach AMMI Models.   Carlos Pereira da Silva, Luciano Antonio de Oliveira, Joel Jorge   Nuvunga, Andrezza Kellen Alves Pamplona, Marcio Balestre.   Plos One. Supplemental material.   https://doi.org/10.1371/journal.pone.0131414 Used via license: Creative Commons -SA.","code":""},{"path":"/reference/dasilva.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize — dasilva.maize","text":"J.J. Nuvunga, L.. Oliveira, .K.. Pamplona, C.P. Silva, R.R. Lima   M. Balestre.   Factor analysis using mixed models multi-environment trials   different levels unbalancing.   Genet. Mol. Res. 14.","code":""},{"path":"/reference/dasilva.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize — dasilva.maize","text":"","code":"library(agridat) data(dasilva.maize) dat <- dasilva.maize  # Try to match Table 1 of da Silva 2015. # aggregate(yield ~ env, data=dat, FUN=mean) ##   env     yield ## 1  E1  6.211817  # match E2 in Table 1 ## 2  E2  4.549104  # E3 ## 3  E3  5.152254  # E4 ## 4  E4  6.245904  # E5 ## 5  E5  8.084609  # E6 ## 6  E6 13.191890  # E7 ## 7  E7  8.895721  # E8 ## 8  E8  8.685448   ## 9  E9  8.737089  # E9  # Unable to match CVs in Table 2, but who knows what they used # for residual variance. # aggregate(yield ~ env, data=dat, FUN=function(x) 100*sd(x)/mean(x))  # Match DaSilva supplement 2, ANOVA # m1 <- aov(yield ~ env + gen + rep:env + gen:env, dat) # anova(m1) ## Response: yield ##            Df Sum Sq Mean Sq  F value    Pr(>F)     ## env         8 8994.2 1124.28 964.1083 < 2.2e-16 *** ## gen        54  593.5   10.99   9.4247 < 2.2e-16 *** ## env:rep    18   57.5    3.19   2.7390 0.0001274 *** ## env:gen   432  938.1    2.17   1.8622 1.825e-15 *** ## Residuals 972 1133.5    1.17"},{"path":"/reference/dasilva.soybean.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of soybean — dasilva.soybean.uniformity","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Uniformity trial soybean Brazil, 1970.","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"","code":"data(\"dasilva.soybean.uniformity\")"},{"path":"/reference/dasilva.soybean.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"data frame 1152 observations following 3 variables. row row col column yield yield, grams/plot","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Field length: 48 rows * .6 m = 28.8 m Field width: 24 columns * .6 m = 14.4 m","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Enedino Correa da Silva. (1974).   Estudo tamanho e forma de parcelas para experimentos de soja (Plot size shape soybean yield trials).   Pesquisa Agropecuaria Brasileira, Serie Agronomia, 9,  49-59. Table 3,   page 52-53.   https://seer.sct.embrapa.br/index.php/pab/article/view/17250","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"Humada-Gonzalez, G.G. (2013).   Estimação tamanho otimo de parcela experimental em experimento com soja.   Dissertation, Universidade Federal de Lavras.   http://repositorio.ufla.br/jspui/handle/1/744","code":""},{"path":"/reference/dasilva.soybean.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of soybean — dasilva.soybean.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(dasilva.soybean.uniformity) dat <- dasilva.soybean.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=28.8/14.4,          main=\"dasilva.soybean.uniformity\")    } # }"},{"path":"/reference/davidian.soybean.html","id":null,"dir":"Reference","previous_headings":"","what":"Growth of soybean varieties in 3 years — davidian.soybean","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"Growth soybean varieties 3 years","code":""},{"path":"/reference/davidian.soybean.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"","code":"data(\"davidian.soybean\")"},{"path":"/reference/davidian.soybean.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"data frame 412 observations following 5 variables. plot plot code variety variety, F P year 1988-1990 day days planting weight weight soybean leaves","code":""},{"path":"/reference/davidian.soybean.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"experiment compared growth patterns two genotypes soybean   varieties: F=Forrest (commercial variety) P=Plant Introduction   number 416937 (experimental variety). Data collected 3 consecutive years. start growing season, 16 plots seeded (8   variety). Data collected approximately weekly. timepoint,   six plants randomly selected plot. leaves   6 plants weighed, average leaf weight per plant   reported. (assume data collection destructive   different plants sampled date). Note: data \"nlme::Soybean\" data.","code":""},{"path":"/reference/davidian.soybean.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"Marie Davidian D. M. Giltinan, (1995).   Nonlinear Models Repeated Measurement Data.   Chapman Hall, London. Electronic version retrieved   https://www4.stat.ncsu.edu/~davidian/data/soybean.dat","code":""},{"path":"/reference/davidian.soybean.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"Pinheiro, J. C. Bates, D. M. (2000).   Mixed-Effects Models S S-PLUS.   Springer, New York.","code":""},{"path":"/reference/davidian.soybean.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Growth of soybean varieties in 3 years — davidian.soybean","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(davidian.soybean)   dat <- davidian.soybean   dat$year <- factor(dat$year)    libs(lattice)   xyplot(weight ~ day|variety*year, dat,          group=plot, type='l',          main=\"davidian.soybean\")     # The only way to keep your sanity with nlme is to use groupedData objects   # Well, maybe not.  When I use \"devtools::run_examples\",   # the \"groupedData\" function creates a dataframe with/within(?) an   # environment, and then \"nlsList\" cannot find datg, even though   # ls() shows datg is visible and head(datg) is fine.   # Also works fine in interactive mode. It is driving me insane.   # reid.grasses has the same problem   # Use if(0){} to block this code from running.   if(0){     libs(nlme)     datg <- groupedData(weight ~ day|plot, dat)     # separate fixed-effect model for each plot     # 1988P6 gives unusual estimates     m1 <- nlsList(SSlogis, data=datg,                   subset = plot != \"1988P6\")     # plot(m1) # seems heterogeneous     plot(intervals(m1), layout=c(3,1)) # clear year,variety effects in Asym      # A = maximum, B = time of half A = steepness of curve     # C = sharpness of curve (smaller = sharper curve)      # switch to mixed effects     m2 <- nlme(weight ~ A / (1+exp(-(day-B)/C)),                data=datg,                fixed=list(A ~ 1, B ~ 1, C ~ 1),                random = A +B +C ~ 1,                start=list(fixed = c(17,52,7.5))) # no list!      # add covariates for A,B,C effects, correlation, weights     # not necessarily best model, but it shows the syntax     m3 <- nlme(weight ~ A / (1+exp(-(day-B)/C)),                data=datg,                fixed=list(A ~ variety + year,                           B ~ year,                         C ~ year),                random = A +B +C ~ 1,                start=list(fixed= c(19,0,0,0,                                    55,0,0,                                    8,0,0)),                correlation = corAR1(form = ~ 1|plot),                weights=varPower(), # really helps                control=list(mxMaxIter=200))      plot(augPred(m3), layout=c(8,6),       main=\"davidian.soybean - model 3\")   } # end if(0) } # }"},{"path":"/reference/davies.pasture.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of pasture. — davies.pasture.uniformity","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"Uniformity trial pasture Australia.","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"","code":"data(\"davies.pasture.uniformity\")"},{"path":"/reference/davies.pasture.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"data frame 760 observations following 3 variables. row row col column yield yield per plot, grams","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"Conducted Waite Agricultural Research Institute 1928.   rectangle 250 x 200 links selected, divided 1000 plots   measuring 10 x 5 links, 1/2000th acre.   Plots hand harvested herbage air-dried. Cutting began   Tue, 25 Sep ended Sat, 29 Sep, time 760 plots   harvested. Rain fell, harvesting ceased. minimum recommended plot size 150 square links. optimum   recommended plot size 450 square links, 5 x 90 links size. Note, 4 digits hard read original   document. Best estimates digits used yields   affects plots.  yields digitally watermarked   extra .01 added yield value. botanical composition species clearly influenced total herbage. Field length: 40 plots * 5 links = 200 links Field width: 19 plots * 10 links = 190 links","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"J. Griffiths Davies (1931).   Experimental Error Yield Small Plots Natural Pasture.   Council Scientific Industrial Research (Aust.) Bulletin 48.   Table 1.","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"None","code":""},{"path":"/reference/davies.pasture.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of pasture. — davies.pasture.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(davies.pasture.uniformity)   dat <- davies.pasture.uniformity      # range(dat$yield) # match Davies   # mean(dat$yield) # 227.77, Davies has 221.7   # sd(dat$yield)/mean(dat$yield) # 33.9, Davies has 32.5    # libs(lattice)   # qqmath( ~ yield, dat) # clearly non-normal, skewed right    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(40*5)/(19*10), # true aspect           main=\"davies.pasture.uniformity\")   } # }"},{"path":"/reference/day.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — day.wheat.uniformity","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"Uniformity trial wheat 1903 Missouri.","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"","code":"data(\"day.wheat.uniformity\")"},{"path":"/reference/day.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"data frame 3090 observations following 4 variables. row row col col grain grain weight, grams per plot straw straw weight, grams per plot","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"data Shelbina field Missouri Agricultural   Experiment Station. field (plat) 1/4 acre area   apparently uniform throughout. fall 1912, wheat drilled   rows 8 inches apart, row 155 feet long. wheat   harvested June, 5-foot segments. gross weight grain   weight measured, straw weight calculated subtraction. Field width: 31 series * 5 feet = 155 feet Field length: 100 rows, 8 inches apart = 66.66 feet","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"James Westbay Day (1916).   relation size, shape, number replications plats   probable error field experimentation.   Dissertation, University Missouri. Table 1, page 22.   https://hdl.handle.net/10355/56391","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"James W. Day (1920).   relation size, shape, number replications plats   probable error field experimentation.   Agronomy Journal, 12, 100-105.   https://doi.org/10.2134/agronj1920.00021962001200030002x","code":""},{"path":"/reference/day.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — day.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(day.wheat.uniformity) dat <- day.wheat.uniformity  libs(desplot) desplot(dat, grain~col*row,         flip=TRUE, aspect=(100*8)/(155*12), # true aspect         main=\"day.wheat.uniformity - grain yield\")    # similar to Day table IV libs(lattice) xyplot(grain~straw, data=dat, main=\"day.wheat.uniformity\", type=c('p','r')) # cor(dat$grain, dat$straw) # .9498 # Day calculated 0.9416    libs(desplot) desplot(dat, straw~col*row,         flip=TRUE, aspect=(100*8)/(155*12), # true aspect         main=\"day.wheat.uniformity - straw yield\")    # Day fig 2 coldat <- aggregate(grain~col, dat, sum)  xyplot(grain ~ col, coldat, type='l', ylim=c(2500,6500)) dat$rowgroup <- round((dat$row +1)/3,0) rowdat <- aggregate(grain~rowgroup, dat, sum)  xyplot(grain ~ rowgroup, rowdat, type='l', ylim=c(2500,6500))  } # }"},{"path":"/reference/denis.missing.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial with structured missing values — denis.missing","title":"Multi-environment trial with structured missing values — denis.missing","text":"Grain yield measured 5 genotypes 26 environments.  Missing   values non-random, structured.","code":""},{"path":"/reference/denis.missing.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial with structured missing values — denis.missing","text":"env environment, 26 levels gen genotype factor, 5 levels yield yield Used permission Jean-Baptists Denis.","code":""},{"path":"/reference/denis.missing.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial with structured missing values — denis.missing","text":"Denis, J. B. C P Baril, 1992, Sophisticated models numerous missing   values: multiplicative interaction model example.   Biul. Oceny Odmian, 24–25, 7–31.","code":""},{"path":"/reference/denis.missing.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial with structured missing values — denis.missing","text":"H P Piepho, (1999) Stability analysis using SAS system,   Agron Journal, 91, 154–160.   https://doi.og/10.2134/agronj1999.00021962009100010024x","code":""},{"path":"/reference/denis.missing.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial with structured missing values — denis.missing","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(denis.missing) dat <- denis.missing  # view missingness structure libs(reshape2) acast(dat, env~gen, value.var='yield')   libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield ~ gen*env, data=dat,           col.regions=redblue,           main=\"denis.missing - incidence heatmap\")  # stability variance (Table 3 in Piepho) libs(nlme) m1 <- lme(yield ~ -1 + gen, data=dat, random= ~ 1|env,           weights = varIdent(form= ~ 1|gen),           na.action=na.omit) svar <- m1$sigma^2 * c(1, coef(m1$modelStruct$varStruct, unc = FALSE))^2 round(svar, 2) ##          G5    G3    G1    G2 ## 39.25 22.95 54.36 12.17 23.77  } # }"},{"path":"/reference/denis.ryegrass.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"Plant strength perennial ryegrass France 21 genotypes 7   locations.","code":""},{"path":"/reference/denis.ryegrass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"data frame 147 observations following 3 variables. gen genotype, 21 levels loc location, 7 levels strength average plant strength * 100","code":""},{"path":"/reference/denis.ryegrass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"INRA conducted breeding trial western France 21 genotypes   7 locations.  observed data 'strength' averaged 7-10   plants per plot three plots per location (adjusting   blocking effects).  plant scored scale 0-9. original data value 86.0 genotype G1 location   L4–replaced additive estimated value 361.2   Gower Hand (1996).","code":""},{"path":"/reference/denis.ryegrass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"Jean-Baptiste Denis John C. Gower, 1996.   Asymptotic confidence regions biadditive models:   interpreting genotype-environment interaction,   Applied Statistics, 45, 479-493.   https://doi.org/10.2307/2986069","code":""},{"path":"/reference/denis.ryegrass.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"Gower, J.C. Hand, D.J., 1996.  Biplots.   Chapman Hall.","code":""},{"path":"/reference/denis.ryegrass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of perennial ryegrass in France — denis.ryegrass","text":"","code":"library(agridat) data(denis.ryegrass) dat <- denis.ryegrass  # biplots (without ellipses) similar to Denis figure 1 libs(gge) #>  #> Attaching package: ‘gge’ #> The following object is masked from ‘package:desplot’: #>  #>     RedGrayBlue m1 <- gge(dat, strength ~ gen*loc, scale=FALSE) biplot(m1, main=\"denis.ryegrass biplot\")"},{"path":"/reference/depalluel.sheep.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square of four breeds of sheep with four diets — depalluel.sheep","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"Latin square four breeds sheep four diets","code":""},{"path":"/reference/depalluel.sheep.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"","code":"data(\"depalluel.sheep\")"},{"path":"/reference/depalluel.sheep.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"data frame 32 observations following 5 variables. food diet animal animal number breed sheep breed weight weight, pounds date months start","code":""},{"path":"/reference/depalluel.sheep.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"may earliest known Latin Square experiment. Four sheep four breeds randomized four feeds   four slaughter dates. Sheep eat roots eat sheep eating corn,   acre land produces roots corn. de Palleuel said: short, adopting use roots, instead   corn, fattening sorts cattle, farmers   neighborhood capital gain great profit   , also much benefit public supplying   great city resources, preventing sudden rise meat   markets, often considerable.","code":""},{"path":"/reference/depalluel.sheep.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"M. Crette de Palluel (1788).   advantage economy feeding sheep house roots.   Annals Agriculture, 14, 133-139.   https://books.google.com/books?id=LXIqAAAAYAAJ&pg=PA133","code":""},{"path":"/reference/depalluel.sheep.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"None","code":""},{"path":"/reference/depalluel.sheep.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square of four breeds of sheep with four diets — depalluel.sheep","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(depalluel.sheep) dat <- depalluel.sheep  # Not the best view...weight gain is large in the first month, then slows down # and the linear line hides this fact libs(lattice) xyplot(weight ~ date|food, dat, group=animal, type='l', auto.key=list(columns=4),        xlab=\"Months since start\",        main=\"depalluel.sheep\") } # }"},{"path":"/reference/devries.pine.html","id":null,"dir":"Reference","previous_headings":"","what":"Graeco-Latin Square experiment in pine — devries.pine","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"Graeco-Latin Square experiment pine","code":""},{"path":"/reference/devries.pine.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"","code":"data(\"devries.pine\")"},{"path":"/reference/devries.pine.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"data frame 36 observations following 6 variables. block block row row col column spacing spacing treatment thinning thinning treatment volume stem volume m^3/ha growth annual stem volume increment m^3/ha age 11","code":""},{"path":"/reference/devries.pine.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"Experiment conducted Caribbean Pine Coebiti Surinam (Long 55   28 30 W, Lat 5 18 5 N). Land cleared Jan 1965 planted May   1965. experimental plot 60m x 60m. Roads 10 m wide run   rows. block thus 180m wide 200m deep. Data   collected 40m x 40m plots center   experimental unit. Plots thinned 1972 1975.   two treatment factors (spacing, thinning) assigned   Graeco-Latin Square design. Spacing: =2.5, B=3, C=3.5. Thinning: Z=low, M=medium, S=heavy. Field width: 4 blocks x 180 m = 720 m Field length: 1 block x 200 m = 200 m.","code":""},{"path":"/reference/devries.pine.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"P.G. De Vries, J.W. Hildebrand, N.R. De Graaf. (1978).   Analysis 11 years growth carribbean pine replicated   Graeco-Latin square spacing-thinning experiment Surinam. Page 46, 51.   https://edepot.wur.nl/287590","code":""},{"path":"/reference/devries.pine.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"None","code":""},{"path":"/reference/devries.pine.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Graeco-Latin Square experiment in pine — devries.pine","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(devries.pine)   dat <- devries.pine    libs(desplot)   desplot(dat, volume ~ col*row,           main=\"devries.pine - expt design and tree volume\",           col=spacing, num=thinning, cex=1, out1=block, aspect=200/720)      libs(HH)   HH::interaction2wt(volume ~ spacing+thinning, dat,                      main=\"devries.pine\")    # ANOVA matches appendix 5 of DeVries   m1 <- aov(volume ~ block + spacing + thinning + block:factor(row) +               block:factor(col), data=dat)   anova(m1)  } # }"},{"path":"/reference/digby.jointregression.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat — digby.jointregression","title":"Multi-environment trial of wheat — digby.jointregression","text":"Yield 10 spring wheat varieties 17 locations 1976.","code":""},{"path":"/reference/digby.jointregression.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat — digby.jointregression","text":"data frame 134 observations following 3 variables. gen genotype, 10 levels env environment, 17 levels yield yield (t/ha)","code":""},{"path":"/reference/digby.jointregression.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat — digby.jointregression","text":"Yield 10 spring wheat varieties 17 locations 1976. Used illustrate modified joint regression.","code":""},{"path":"/reference/digby.jointregression.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat — digby.jointregression","text":"Digby, P.G.N. (1979). Modified joint regression analysis   incomplete variety x environment data.   Journal Agricultural Science, 93, 81-86.   https://doi.org/10.1017/S0021859600086159","code":""},{"path":"/reference/digby.jointregression.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat — digby.jointregression","text":"Hans-Pieter Piepho, 1997.   Analyzing Genotype-Environment Data Mixed-Models   Multiplicative Terms. Biometrics, 53, 761-766.   https://doi.org/10.2307/2533976 RJOINT procedure GenStat.   https://www.vsni.co.uk/software/genstat/htmlhelp/server/RJOINT.htm","code":""},{"path":"/reference/digby.jointregression.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat — digby.jointregression","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(digby.jointregression)   dat <- digby.jointregression      # Simple gen means, ignoring unbalanced data.   # Matches Digby table 2, Unadjusted Mean   round(tapply(dat$yield, dat$gen, mean),3)      # Two-way model. Matches Digby table 2, Fitting Constants   m00 <- lm(yield ~ 0 + gen + env, dat)   round(coef(m00)[1:10]-2.756078+3.272,3) # Adjust intercept   # genG01 genG02 genG03 genG04 genG05 genG06 genG07 genG08 genG09 genG10    #  3.272  3.268  4.051  3.724  3.641  3.195  3.232  3.268  3.749  3.179       n.gen <- nlevels(dat$gen)   n.env <- nlevels(dat$env)      # Estimate theta (env eff)   m0 <- lm(yield ~ -1 + env + gen, dat)   thetas <- coef(m0)[1:n.env]   thetas <- thetas-mean(thetas) # center env effects   # Add env effects to the data   dat$theta <- thetas[match(paste(\"env\",dat$env,sep=\"\"), names(thetas))]      # Initialize beta (gen slopes) at 1   betas <- rep(1, n.gen)      done <- FALSE   while(!done){          betas0 <- betas          # M1: Fix thetas (env effects), estimate beta (gen slope)     m1 <- lm(yield ~ -1 + gen + gen:theta, data=dat)     betas <- coef(m1)[-c(1:n.gen)]     dat$beta <- betas[match(paste(\"gen\",dat$gen,\":theta\",sep=\"\"), names(betas))]     # print(betas)      # M2: Fix betas (gen slopes), estimate theta (env slope)     m2 <- lm(yield ~ env:beta + gen -1, data=dat)     thetas <- coef(m2)[-c(1:n.gen)]     thetas[is.na(thetas)] <- 0  # Change last coefficient from NA to 0     dat$theta <- thetas[match(paste(\"env\",dat$env,\":beta\",sep=\"\"), names(thetas))]     # print(thetas)      # Check convergence     chg <- sum(((betas-betas0)/betas0)^2)     cat(\"Relative change in betas\",chg,\"\\n\")     if(chg < .0001) done <- TRUE        }    libs(lattice)   xyplot(yield ~ theta|gen, data=dat, xlab=\"theta (environment effect)\",          main=\"digby.jointregression - stability plot\")    # Dibgy Table 2, modified joint regression      # Genotype sensitivities (slopes)   round(betas,3) # Match Digby table 2, Modified joint regression sensitivity   # genG01 genG02 genG03 genG04 genG05 genG06 genG07 genG08 genG09 genG10   #  0.953  0.739  1.082  1.024  1.142  0.877 1.089  0.914  1.196  0.947    # Env effects. Match Digby table 3, Modified joint reg   round(thetas,3)+1.164-.515 # Adjust intercept to match   # envE01 envE02 envE03 envE04 envE05 envE06 envE07 envE08 envE09 envE10   # -0.515 -0.578 -0.990 -1.186  1.811  1.696 -1.096  0.046  0.057  0.825   # envE11 envE12 envE13 envE14 envE15 envE16 envE17   # -0.576  1.568 -0.779 -0.692  0.836 -1.080  0.649    # Using 'gnm' gives similar results.   # libs(gnm)   # m3 <- gnm(yield ~ gen + Mult(gen,env), data=dat) # slopes negated   # round(coef(m3)[11:20],3)    # Using 'mumm' gives similar results, though gen is random and the   # coeffecients are shrunk toward 0 a bit.   if(require(\"mumm\", quietly=TRUE)) {     libs(mumm)     m1 <- mumm(yield ~ -1 + env + mp(gen, env), dat)     round(1 + ranef(m1)$`mp gen:env`,2)   }    } # }"},{"path":"/reference/diggle.cow.html","id":null,"dir":"Reference","previous_headings":"","what":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Bodyweight cows 2--2 factorial experiment.","code":""},{"path":"/reference/diggle.cow.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"data frame 598 observations following 5 variables. animal Animal factor, 26 levels iron Factor levels Iron, NoIron infect Factor levels Infected, NonInfected weight Weight (rounded nearest 5) kilograms day Days birth","code":""},{"path":"/reference/diggle.cow.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Diggle et al., 1994, pp. 100-101, consider experiment studied   iron dosing (none/standard) micro-organism (infected   non-infected) influence weight cows. Twenty-eight cows allocated 2--2 factorial design   factors.  calves inoculated tuberculosis six   weeks age.  six months, calves maintained   supplemental iron diet 27 months. weight animal measured 23 times,   unequally spaced. One cow died study data another   cow removed.","code":""},{"path":"/reference/diggle.cow.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Diggle, P. J., Liang, K.-Y., & Zeger, S. L. (1994).   Analysis Longitudinal Data. Page 100-101. Retrieved Oct 2011   https://www.maths.lancs.ac.uk/~diggle/lda/Datasets/","code":""},{"path":"/reference/diggle.cow.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"Lepper, AWD Lewis, VM, 1989. Effects altered dietary iron   intake Mycobacterium paratuberculosis-infected dairy cattle:   sequential observations growth, iron copper metabolism   development paratuberculosis.   Research veterinary science, 46, 289–296. Arunas P. Verbyla Brian R. Cullis Michael G. Kenward   Sue J. Welham, (1999), analysis designed experiments   longitudinal data using smoothing splines. Appl. Statist.,   48, 269–311. SAS/STAT(R) 9.2 User's Guide, Second Edition.   https://support.sas.com/documentation/cdl/en/statug/63033/HTML/default/viewer.htm#statug_glimmix_sect018.htm","code":""},{"path":"/reference/diggle.cow.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Bodyweight of cows in a 2-by-2 factorial experiment — diggle.cow","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(diggle.cow)   dat <- diggle.cow      # Figure 1 of Verbyla 1999   libs(latticeExtra)   useOuterStrips(xyplot(weight ~ day|iron*infect, dat, group=animal,                         type='b', cex=.5,                          main=\"diggle.cow\"))      # Scaling   dat <- transform(dat, time = (day-122)/10)     if(require(\"asreml\", quietly=TRUE)) {     libs(asreml, latticeExtra)          ## # Smooth for each animal.  No treatment effects. Similar to SAS Output 38.6.9          m1 <- asreml(weight ~ 1 + lin(time) + animal + animal:lin(time), data=dat,                  random = ~ animal:spl(time))     p1 <- predict(m1, data=dat, classify=\"animal:time\",                   design.points=list(time=seq(0,65.9, length=50)))     p1 <- p1$pvals     p1 <- merge(dat, p1, all=TRUE) # to get iron/infect merged in     foo1 <- xyplot(weight ~ day|iron*infect, dat, group=animal,                    main=\"diggle.cow\")     foo2 <- xyplot(predicted.value ~ day|iron*infect, p1, type='l', group=animal)     print(foo1+foo2)   }    } # }"},{"path":"/reference/draper.safflower.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of safflower — draper.safflower.uniformity","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"Uniformity trial safflower Arizona 1958.","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"","code":"data(\"draper.safflower.uniformity\")"},{"path":"/reference/draper.safflower.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"data frame 640 observations following 4 variables. expt experiment row row col column yield yield per plot (grams)","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"Experiments conducted Agricultural Experiment Station Farm   Eloy, Arizona. crop harvested July 1958. crop planted two rows 12 inches apart vegetable beds 40   inches center center. test, end ranges one row plots one side   next alleys, plots gave estimates border effects. Experiment E4 (four foot test) Sandy streaks present field. Average yield 1487   lb/ac. diagonal fertility gradient field.  Widening   plot equally effective lengthening plot reduce   variability.  optimum plot size 1 bed wide, 24 feet long.   Considering economic costs, optimum size 1 bed, 12 feet long. Field width: 16 beds * 3.33 feet = 53 feet Field length: 18 ranges * 4 feet = 72 feet Experiment E5 (five foot test) Average yield 2517 lb/ac, typical crop.  Combining plots   lengthwise effective widening plots, order   reduce variability. optimum plot size 1 bed wide, 25 feet   long.   Considering economic costs, optimum size 1 bed, 18 feet long. Field width: 14 beds * 3.33 feet = 46.6 feet. Field length: 18 ranges * 5 feet = 90 feet. Data Table & B Draper, p. 53-56.   Typed K.Wright.","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"Arlen D. Draper. (1959).   Optimum plot size shape safflower yield tests.   Dissertation. University Arizona.   https://hdl.handle.net/10150/319371   Page 53-56.","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"None","code":""},{"path":"/reference/draper.safflower.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of safflower — draper.safflower.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(draper.safflower.uniformity)   dat4 <- subset(draper.safflower.uniformity, expt==\"E4\")   dat5 <- subset(draper.safflower.uniformity, expt==\"E5\")      libs(desplot)   desplot(dat4, yield~col*row,           flip=TRUE, tick=TRUE, aspect=72/53, # true aspect           main=\"draper.safflower.uniformity (four foot)\")      desplot(dat5, yield~col*row,           flip=TRUE, tick=TRUE, aspect=90/46, # true aspect           main=\"draper.safflower.uniformity (five foot)\")    # Draper appears to removed the border plots, but it is difficult to   # match his results exactly   dat4 <- subset(dat4, row>1 & row<20)   dat4 <- subset(dat4, col>1 & col<17)   dat5 <- subset(dat5, row>1 & row<20)   dat5 <- subset(dat5, col<15)   # Convert gm/plot to pounds/acre. Draper (p. 20) says 1487 pounds/acre   mean(dat4$yield) / 453.592 / (3.33*4) * 43560 # 1472 lb/ac      libs(agricolae)   libs(reshape2)      s4 <- index.smith(acast(dat4, row~col, value.var='yield'),                     main=\"draper.safflower.uniformity (four foot)\",                     col=\"red\")$uni   s4 # match Draper table 2, p 22      ## s5 <- index.smith(acast(dat5, row~col, value.var='yield'),   ##                   main=\"draper.safflower.uniformity (five foot)\",   ##                   col=\"red\")$uni   ## s5 # match Draper table 1, p 21    } # }"},{"path":"/reference/ducker.groundnut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of groundnut — ducker.groundnut.uniformity","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"Uniformity trial groundnut.","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"","code":"data(\"ducker.groundnut.uniformity\")"},{"path":"/reference/ducker.groundnut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"data frame 215 observations following 3 variables. row row ordinate col column ordinate yield yield, pounds per plot","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"experiment grown Nyasaland, Cotton Experiment Station,   Domira Bay, 1942-43. 44x5 identical plots, 1/220 acre   area. Single ridge plots one chain length, one yard   apart. Two rows groundnuts planted per ridge, staggered 1   foot holes. Holes spaced 18 inches x 12 inches. Two seeds   planted per hole. yield values pounds nuts shell. Field length: 5 plots, 22 yards = 110 yards. Field width: 44 plots, 1 yard = 44 yards. data made available special help staff   Rothamsted Research Library. Data typed K.Wright checked hand.","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 2.","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"None","code":""},{"path":"/reference/ducker.groundnut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of groundnut — ducker.groundnut.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(ducker.groundnut.uniformity)   dat <- ducker.groundnut.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=110/44,           main=\"ducker.groundnut.uniformity\") } # }"},{"path":"/reference/durban.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Sugar beet yields with competition effects — durban.competition","title":"Sugar beet yields with competition effects — durban.competition","text":"Sugar beet yields competition effects","code":""},{"path":"/reference/durban.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Sugar beet yields with competition effects — durban.competition","text":"data frame 114 observations following 5 variables. gen Genotype factor, 36 levels plus Border col Column block Row/Block wheel Position relative wheel tracks yield Root yields, kg/plot","code":""},{"path":"/reference/durban.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Sugar beet yields with competition effects — durban.competition","text":"sugar-beet trial conducted 1979. Single-row plots, 12 m long, 0.5 m rows.  block made   36 genotypes laid side side.  Guard/border plots   end.  Root yields collected. Wheel tracks located columns 1 2, columns   5 6, set six plots.  genotype randomly   allocated pair plots (1,6), (2,5), (3,4) across   three reps.  Wheel effect significant _this_ trial. Field width: 18m + 1m guard rows = 19m Field length: 3 blocks * 12m + 2*0.5m spacing = 37m   Retrieved   https://www.ma.hw.ac.uk/~iain/research/JAgSciData/data/Trial1.dat Used permission Iain Currie.","code":""},{"path":"/reference/durban.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Sugar beet yields with competition effects — durban.competition","text":"Durban, M., Currie, . R. Kempton, 2001.   Adjusting fertility competition variety trials.   J. Agricultural Science, 136, 129–140.","code":""},{"path":"/reference/durban.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Sugar beet yields with competition effects — durban.competition","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(durban.competition) dat <- durban.competition  # Check that genotypes were balanced across wheel tracks. with(dat, table(gen,wheel))  libs(desplot) desplot(dat, yield ~ col*block,         out1=block, text=gen, col=wheel, aspect=37/19, # true aspect         main=\"durban.competition\")   # Calculate residual after removing block/genotype effects m1 <- lm(yield ~ gen + block, data=dat) dat$res <- resid(m1)  ## desplot(dat, res ~ col*block, out1=block, text=gen, col=wheel, ##         main=\"durban.competition - residuals\")  # Calculate mean of neighboring plots dat$comp <- NA dat$comp[3:36] <- ( dat$yield[2:35] + dat$yield[4:37] ) / 2 dat$comp[41:74] <- ( dat$yield[40:73] + dat$yield[42:75] ) / 2 dat$comp[79:112] <- ( dat$yield[78:111] + dat$yield[80:113] ) / 2  # Demonstrate the competition effect # Competitor plots have low/high yield -> residuals are negative/positive libs(lattice) xyplot(res~comp, dat, type=c('p','r'), main=\"durban.competition\",        xlab=\"Average yield of neighboring plots\", ylab=\"Residual\")  } # }"},{"path":"/reference/durban.rowcol.html","id":null,"dir":"Reference","previous_headings":"","what":"Row-column experiment of spring barley, many varieties — durban.rowcol","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Row-column experiment spring barley, many varieties","code":""},{"path":"/reference/durban.rowcol.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"data frame 544 observations following 5 variables. row row bed bed (column) rep rep, 2 levels gen genotype, 272 levels yield yield, tonnes/ha","code":""},{"path":"/reference/durban.rowcol.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Spring barley variety trial 272 entries (260 new varieties, 12   control). Grown Scottish Crop Research Institute 1998.   Row-column design 2 reps, 16 rows (north/south) 34 beds   (east/west).   land sloped downward row 16 row 1.  Plot yields   converted tonnes per hectare. Plot dimensions given. Used permission Maria Durban.","code":""},{"path":"/reference/durban.rowcol.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Durban, Maria Hackett, Christine McNicol, James   Newton, Adrian Thomas, William Currie, Iain. 2003.   practical use semiparametric models field trials,   Journal Agric Biological Envir Stats, 8, 48-66.   https://doi.org/10.1198/1085711031265","code":""},{"path":"/reference/durban.rowcol.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"Edmondson, Rodney (2020).   Multi-level Block Designs Comparative Experiments.   J Agric, Biol, Env Stats.   https://doi.org/10.1007/s13253-020-00416-0","code":""},{"path":"/reference/durban.rowcol.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Row-column experiment of spring barley, many varieties — durban.rowcol","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(durban.rowcol)   dat <- durban.rowcol      libs(desplot)   desplot(dat, yield~bed*row,           out1=rep, num=gen, # aspect unknown           main=\"durban.rowcol\")       # Durban 2003 Figure 1   m10 <- lm(yield~gen, data=dat)   dat$resid <- m10$resid   ## libs(lattice)   ## xyplot(resid~row, dat, type=c('p','smooth'), main=\"durban.rowcol\")   ## xyplot(resid~bed, dat, type=c('p','smooth'), main=\"durban.rowcol\")      # Figure 3   libs(lattice)   xyplot(resid ~ bed|factor(row), data=dat,          main=\"durban.rowcol\",          type=c('p','smooth'))          # Figure 5 - field trend   # note, Durban used gam package like this   # m1lo <- gam(yield ~ gen + lo(row, span=10/16) + lo(bed, span=9/34), data=dat)   libs(mgcv)   m1lo <- gam(yield ~ gen + s(row) + s(bed, k=5), data=dat)   new1 <- expand.grid(row=unique(dat$row),bed=unique(dat$bed))   new1 <- cbind(new1, gen=\"G001\")   p1lo <- predict(m1lo, newdata=new1)   libs(lattice)   wireframe(p1lo~row+bed, new1, aspect=c(1,.5), main=\"Field trend\")     if(require(\"asreml\", quietly=TRUE)) {     libs(asreml)      dat <- transform(dat, rowf=factor(row), bedf=factor(bed))     dat <- dat[order(dat$rowf, dat$bedf),]      m1a1 <- asreml(yield~gen + lin(rowf) + lin(bedf), data=dat,                    random=~spl(rowf) + spl(bedf) + units,                    family=asr_gaussian(dispersion=1))     m1a2 <- asreml(yield~gen + lin(rowf) + lin(bedf), data=dat,                    random=~spl(rowf) + spl(bedf) + units,                    resid = ~ar1(rowf):ar1(bedf))     m1a2 <- update(m1a2)     m1a3 <- asreml(yield~gen, data=dat, random=~units,                    resid = ~ar1(rowf):ar1(bedf))          # Figure 7     libs(lattice)     v7a <- asr_varioGram(x=dat$bedf, y=dat$rowf, z=m1a3$residuals)     wireframe(gamma ~ x*y, v7a, aspect=c(1,.5)) # Fig 7a          v7b <- asr_varioGram(x=dat$bedf, y=dat$rowf, z=m1a2$residuals)     wireframe(gamma ~ x*y, v7b, aspect=c(1,.5)) # Fig 7b          v7c <- asr_varioGram(x=dat$bedf, y=dat$rowf, z=m1lo$residuals)     wireframe(gamma ~ x*y, v7c, aspect=c(1,.5)) # Fig 7c   }    } # }"},{"path":"/reference/durban.splitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"Split-plot experiment barley fungicide treatments","code":""},{"path":"/reference/durban.splitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"data frame 560 observations following 6 variables. yield yield, tonnes/ha block block, 4 levels gen genotype, 70 levels fung fungicide, 2 levels row row bed bed (column)","code":""},{"path":"/reference/durban.splitplot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"Grown 1995-1996 Scottish Crop Research Institute.   Split-plot design 4 blocks, 2 whole-plot fungicide treatments,   70 barley varieties variety mixes.  Total area 10 rows   (north/south) 56 beds (east/west). Used permission Maria Durban.","code":""},{"path":"/reference/durban.splitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"Durban, Maria Hackett, Christine McNicol, James   Newton, Adrian Thomas, William Currie, Iain. 2003.   practical use semiparametric models field trials,   Journal Agric Biological Envir Stats, 8, 48-66.   https://doi.org/10.1198/1085711031265.","code":""},{"path":"/reference/durban.splitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of barley with fungicide treatments — durban.splitplot","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(durban.splitplot)   dat <- durban.splitplot    libs(desplot)   desplot(dat, yield~bed*row,           out1=block, out2=fung, num=gen, # aspect unknown           main=\"durban.splitplot\")     # Durban 2003, Figure 2   m20 <- lm(yield~gen + fung + gen:fung, data=dat)   dat$resid <- m20$resid   ## libs(lattice)   ## xyplot(resid~row, dat, type=c('p','smooth'), main=\"durban.splitplot\")   ## xyplot(resid~bed, dat, type=c('p','smooth'), main=\"durban.splitplot\")    # Figure 4 doesn't quite match due to different break points   libs(lattice)   xyplot(resid ~ bed|factor(row), data=dat,          main=\"durban.splitplot\",          type=c('p','smooth'))     # Figure 6 - field trend   # note, Durban used gam package like this   # m2lo <- gam(yield ~ gen*fung + lo(row, bed, span=.082), data=dat)   libs(mgcv)   m2lo <- gam(yield ~ gen*fung + s(row, bed,k=45), data=dat)   new2 <- expand.grid(row=unique(dat$row), bed=unique(dat$bed))   new2 <- cbind(new2, gen=\"G01\", fung=\"F1\")   p2lo <- predict(m2lo, newdata=new2)   libs(lattice)   wireframe(p2lo~row+bed, new2, aspect=c(1,.5),             main=\"durban.splitplot - Field trend\")    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          # Table 5, variance components.  Table 6, F tests     dat <- transform(dat, rowf=factor(row), bedf=factor(bed))     dat <- dat[order(dat$rowf, dat$bedf),]     m2a2 <- asreml(yield ~ gen*fung, random=~block/fung+units, data=dat,                    resid =~ar1v(rowf):ar1(bedf))     m2a2 <- update(m2a2)          lucid::vc(m2a2)     ##             effect component std.error z.ratio bound      ##              block   0              NA      NA     B  NA     ##         block:fung   0.01206  0.01512      0.8     P   0     ##              units   0.02463  0.002465    10       P   0     ##       rowf:bedf(R)   1              NA      NA     F   0     ## rowf:bedf!rowf!cor   0.8836   0.03646     24       U   0     ## rowf:bedf!rowf!var   0.1261   0.04434      2.8     P   0     ## rowf:bedf!bedf!cor   0.9202   0.02846     32       U   0          wald(m2a2)   }    } # }"},{"path":"/reference/eden.nonnormal.html","id":null,"dir":"Reference","previous_headings":"","what":"Height of barley plants in a study of non-normal data — eden.nonnormal","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"Height barley plants study non-normal data.","code":""},{"path":"/reference/eden.nonnormal.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"","code":"data(\"eden.nonnormal\")"},{"path":"/reference/eden.nonnormal.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"data frame 256 observations following 3 variables. pos position within block block block (numeric) height height wheat plant","code":""},{"path":"/reference/eden.nonnormal.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"data used early example permutation test. Eden & Yates used data consider impact non-normal data   validity hypothesis test assumes normality.    concluded skew data negatively affect analysis   variance. Grown Rothamsted. Eight blocks Yeoman II wheat.  Sampling   blocks quarter-meter rows, four times row.  Rows   selected random. Position  within rows partly controlled   make use whole length block.  Plants ends   sub-unit measured. Shoot height measured ground level   auricle last expanded leaf.","code":""},{"path":"/reference/eden.nonnormal.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"T. Eden, F. Yates (1933).   validity Fisher's z test applied actual example non-normal data.   Journal Agric Science, 23, 6-17.   https://doi.org/10.1017/S0021859600052862","code":""},{"path":"/reference/eden.nonnormal.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"Kenneth J. Berry, Paul W. Mielke, Jr., Janis E. Johnston   Permutation Statistical Methods: Integrated Approach.","code":""},{"path":"/reference/eden.nonnormal.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Height of barley plants in a study of non-normal data — eden.nonnormal","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(eden.nonnormal) dat <- eden.nonnormal mean(dat$height) # 55.23 matches Eden table 1  # Eden figure 2 libs(dplyr, lattice) # Blocks had different means, so substract block mean from each datum dat <- group_by(dat, block) dat <- mutate(dat, blkmn=mean(height)) dat <- transform(dat, dev=height-blkmn)  histogram( ~ dev, data=dat, breaks=seq(from=-40, to=30, by=2.5),           xlab=\"Deviations from block means\",           main=\"eden.nonnormal - heights skewed left\")    # calculate skewness, permutation       libs(dplyr, lattice, latticeExtra)      # Eden table 1   # anova(aov(height ~ factor(block), data=dat))      # Eden table 2,3. Note, this may be a different definition of skewness   # than is commonly used today (e.g. e1071::skewness).   skew <- function(x){     n <- length(x)     x <- x - mean(x)     s1 = sum(x)     s2 = sum(x^2)     s3 = sum(x^3)     k3=n/((n-1)*(n-2)) * s3 -3/n*s2*s1 + 2/n^2 * s1^3     return(k3)   }   # Negative values indicate data are skewed left   dat <- group_by(dat, block)   summarize(dat, s1=sum(height),s2=sum(height^2), mean2=var(height), k3=skew(height))   ##   block     s1       s2     mean2         k3   ##   <int>  <dbl>    <dbl>     <dbl>      <dbl>   ## 1     1 1682.0  95929.5 242.56048 -1268.5210   ## 2     2 1858.0 111661.5 121.97984 -1751.9919   ## 3     3 1809.5 108966.8 214.36064 -3172.5284   ## 4     4 1912.0 121748.5 242.14516 -2548.2194   ## 5     5 1722.0  99026.5 205.20565  -559.0629   ## 6     6 1339.0  63077.0 227.36190  -801.2740   ## 7     7 1963.0 123052.5  84.99093  -713.2595   ## 8     8 1854.0 112366.0 159.67339 -1061.9919    # Another way to view skewness with qq plot. Panel 3 most skewed.   qqmath( ~ dev|factor(block), data=dat,          as.table=TRUE,          ylab=\"Deviations from block means\",          panel = function(x, ...) {            panel.qqmathline(x, ...)            panel.qqmath(x, ...)          })    # Now, permutation test.   # Eden: \"By a process of amalgamation the eight sets of 32 observations were   # reduced to eight sets of four and the data treated as a potential   # layout for a 32-plot trial\".   dat2 <- transform(dat, grp = rep(1:4, each=8))   dat2 <- aggregate(height ~ grp+block, dat2, sum)   dat2$trt <- rep(letters[1:4], 8)   dat2$block <- factor(dat2$block)    # Treatments were assigned at random 1000 times   set.seed(54323)   fobs <- rep(NA, 1000)   for(i in 1:1000){     # randomize treatments within each block     # trick from https://stackoverflow.com/questions/25085537     dat2$trt <- with(dat2, ave(trt, block, FUN = sample))     fobs[i] <- anova(aov(height ~ block + trt, dat2))[\"trt\",\"F value\"]   }    # F distribution with 3,21 deg freedom   # Similar to Eden's figure 4, but on a different horizontal scale   xval <- seq(from=0,to=max(fobs), length=50)   yval <- df(xval, df1 = 3, df2 = 21)   # Re-scale, 10 = max of historgram, 0.7 = max of density   histogram( ~ fobs, breaks=xval,             xlab=\"F value\",             main=\"Observed (histogram) & theoretical (line) F values\") +     xyplot((10/.7)* yval ~ xval, type=\"l\", lwd=2)  } # }"},{"path":"/reference/eden.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"Potato yields response potash nitrogen fertilizer.   Data Fisher's 1929 paper Studies Crop Variation 6.   different design used year.","code":""},{"path":"/reference/eden.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"data frame 225 observations following 9 variables. year year/type factor yield yield, pounds per plot block block row row col column trt treatment factor nitro nitrogen fertilizer, cwt/acre potash potash fertilizer, cwt/acre ptype potash type","code":""},{"path":"/reference/eden.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"data interest show gradual development   experimental designs agriculture. 1925/1926 potato variety Kerr's Pink.  1927 Arran   Comrade. 1925a/1926a qualitative experiments, treatments   O=None, S=Sulfate, M=Muriate, P=Potash manure salts.   design Latin Square. 1925/1926b/1927 experiments RCB designs treatment codes   defining amount type fertilizer used.  Note: 't'   treatment defined original paper.","code":""},{"path":"/reference/eden.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"T Eden R Fisher, 1929.   Studies Crop Variation. VI. Experiments response   potato potash nitrogen.   Journal Agricultural Science, 19: 201-213.","code":""},{"path":"/reference/eden.potato.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/eden.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato yields in response to potash and nitrogen fertilizer — eden.potato","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(eden.potato) dat <- eden.potato  # 1925 qualitative d5a <- subset(dat, year=='1925a') libs(desplot) desplot(d5a, trt~col*row,         text=yield, cex=1, shorten='no', # aspect unknown         main=\"eden.potato: 1925 qualitative\") anova(m5a <- aov(yield~trt+factor(row)+factor(col), d5a)) # table 2  # 1926 qualitative d6a <- subset(dat, year=='1926a') libs(desplot) desplot(d6a, trt~col*row,         text=yield, cex=1, shorten='no', # aspect unknown         main=\"eden.potato: 1926 qualitative\") anova(m6a <- aov(yield~trt+factor(row)+factor(col), d6a)) # table 4  # 1925 quantitative d5 <- subset(dat, year=='1925b') libs(desplot) desplot(d5, yield ~ col*row,         out1=block, text=trt, cex=1, # aspect unknown         main=\"eden.potato: 1925 quantitative\")  # Trt 't' not defined, seems to be the same as 'a' libs(lattice) dotplot(trt~yield|block, d5,         # aspect unknown         main=\"eden.potato: 1925 quantitative\") anova(m5 <- aov(yield~trt+block, d5)) # table 6  # 1926 quantitative d6 <- subset(dat, year=='1926b') libs(desplot) desplot(d6, yield ~ col*row,         out1=block, text=trt, cex=1, # aspect unknown         main=\"eden.potato: 1926 quantitative\") anova(m6 <- aov(yield~trt+block, d6)) # table 7  # 1927 qualitative + quantitative d7 <- droplevels(subset(dat, year==1927)) libs(desplot) desplot(d7, yield ~ col*row,         out1=block, text=trt, cex=1, col=ptype, # aspect unknown       main=\"eden.potato: 1927 qualitative + quantitative\")  # Table 8.  Anova, mean yield tons / acre anova(m7 <- aov(yield~trt+block+ptype + ptype:potash, d7)) libs(reshape2) me7 <- melt(d7, measure.vars='yield') acast(me7, potash~nitro, fun=mean) * 40/2240 # English ton = 2240 pounds acast(me7, potash~ptype, fun=mean) * 40/2240  } # }"},{"path":"/reference/eden.tea.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tea — eden.tea.uniformity","title":"Uniformity trial of tea — eden.tea.uniformity","text":"Uniformity trial tea Ceylon.","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tea — eden.tea.uniformity","text":"","code":"data(\"eden.tea.uniformity\")"},{"path":"/reference/eden.tea.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tea — eden.tea.uniformity","text":"data frame 144 observations following 4 variables. entry entry number yield yield row row col column","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tea — eden.tea.uniformity","text":"Tea plucking Ceylon extended 20 Apr 1928 10 Dec 1929.   42 pluckings. clear units , paper mentions \"quarter pound\". field divided 144 plots 1/72 acre = 605 sq ft. plot contained 6 rows bushes, approximately 42 bushes. (  row thus 7 bushes). Plots row 12 high hillside, plots row 1 low hill. Note: assume plots roughly square: 6 rows 7 bushes. Field width: 12 plots * 24.6 feet = 295 feet Field length: 12 plots * 24.6 feet = 295 feet Data typed K.Wright.   Although pdf paper crease across page hid   digits, row column totals included paper   allowed re-construction missing digits.","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tea — eden.tea.uniformity","text":"T. Eden. (1931).   Studies yield tea. 1. experimental errors field   experiments tea.   Agricultural Science, 21, 547-573.   https://doi.org/10.1017/S0021859600088511","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tea — eden.tea.uniformity","text":"None","code":""},{"path":"/reference/eden.tea.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tea — eden.tea.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(eden.tea.uniformity)   dat <- eden.tea.uniformity      # sum(dat$yield) # 140050.6 matches total yield in appendix A   # mean(dat$yield) # 972.574 match page 5554      m1 <- aov(yield ~ factor(entry) + factor(row) + factor(col), data=dat)   summary(m1)      libs(desplot)   desplot(dat, yield ~ col*row,           aspect=1,           main=\"eden.tea.uniformity\")    } # }"},{"path":"/reference/edwards.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"Multi-environment trial oats 5 locations, 7 years, 3   replicates trial.","code":""},{"path":"/reference/edwards.oats.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"","code":"data(\"edwards.oats\")"},{"path":"/reference/edwards.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"data frame 3694 observations following 7 variables. eid Environment identification (factor) year Year loc Location name block Block gen Genotype name yield Yield testwt Test weight","code":""},{"path":"/reference/edwards.oats.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"data comes breeding program, usual   pattern (1) genotypes entering/leaving program (2) check   genotypes remain throughout duration program. Experiments conducted Iowa State University Oat Variety   Trial years 1997 2003. year 40 genotypes, 30 released checks   10 experimental lines. genotype appeared range 3   34 year-loc combinations. trials grown five locations Iowa:   Ames, Nashua, Crawfordsville, Lewis, Sutherland.   1998 trial grown Sutherland.   3 blocks trial. Five genotypes removed data low yields (included ). environment identifaction values Edwards (2006)   table 1. Electronic data supplied Jode Edwards.","code":""},{"path":"/reference/edwards.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"Jode W. Edwards, Jean-Luc Jannink (2006).   Bayesian Modeling Heterogeneous Error Genotype x Environment Interaction Variances.   Crop Science, 46, 820-833.   https://dx.doi.org/10.2135/cropsci2005.0164","code":""},{"path":"/reference/edwards.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"None","code":""},{"path":"/reference/edwards.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of oats in United States, 5 locations, 7 years. — edwards.oats","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   libs(dplyr,lattice, reshape2, stringr)   data(edwards.oats)   dat <- edwards.oats   dat$env <- paste0(dat$year,\".\",dat$loc)   dat$eid <- factor(dat$eid)   mat <- reshape2::acast(dat, env ~ gen,                          fun.aggregate=mean, value.var=\"yield\", na.rm=TRUE)   lattice::levelplot(mat, aspect=\"m\",                      main=\"edwards.oats\",                      xlab=\"environment\", ylab=\"genotype\",                      scales=list(x=list(rot=90)))    # Calculate BLUEs of gen/env effects   m1 <- lm(yield ~ gen+eid, dat)    gg <- coef(m1)[2:80]   names(gg) <- stringr::str_replace(names(gg), \"gen\", \"\")   gg <- c(0,gg)   names(gg)[1] <- \"ACStewart\"    ee <- coef(m1)[81:113]   names(ee) <- stringr::str_replace(names(ee), \"eid\", \"\")   ee <- c(0,ee)   names(ee)[1] <- \"1\"      # Subtract gen/env coefs from yield values   dat2 <- dat   dat2$gencoef <- gg[match(dat2$gen, names(gg))]   dat2$envcoef <- ee[match(dat2$eid, names(ee))]   dat2 <- dplyr::mutate(dat2, y = yield - gencoef - envcoef)    # Calculate variance for each gen*env. Shape of the graph is vaguely   # similar to Fig 2 of Edwards et al (2006), who used a Bayesian model   dat2 <- group_by(dat2, gen, eid)   dat2sum <- summarize(dat2, stddev = sd(y))   bwplot(stddev ~ eid, dat2sum)  } # }"},{"path":"/reference/engelstad.nitro.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Corn yield response nitrogen fertilizer single variety   corn two locations five years","code":""},{"path":"/reference/engelstad.nitro.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"data frame 60 observations following 4 variables. loc location, 2 levels year year, 1962-1966 nitro nitrogen fertilizer kg/ha yield yield, quintals/ha","code":""},{"path":"/reference/engelstad.nitro.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Corn yield response nitrogen fertilizer single variety   corn two locations Tennessee five years.   yield data mean 9 replicates.  original   paper fits quadratic curves data.  Schabenberger Pierce fit   multiple models including linear plateau.  example fits   quadratic plateau one year/loc.  original paper, 1965   1966 data Knoxville location used appeared   response due nitrogen minimal 1965 nonexistant   1966.  economic optimum can found setting tangent   equal ratio (fertilizer price)/(grain price).","code":""},{"path":"/reference/engelstad.nitro.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Engelstad, OP Parks, WL.  1971.   Variability Optimum N Rates Corn.   Agronomy Journal, 63, 21–23.","code":""},{"path":"/reference/engelstad.nitro.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"Schabenberger, O. Pierce, F.J., 2002.   Contemporary statistical models plant soil sciences,   CRC. Page 254-259.","code":""},{"path":"/reference/engelstad.nitro.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn with nitrogen fertilizer — engelstad.nitro","text":"","code":"library(agridat) data(engelstad.nitro) dat <- engelstad.nitro  libs(latticeExtra) useOuterStrips(xyplot(yield ~ nitro | factor(year)*loc, dat,                       main=\"engelstad.nitro\"))   # Fit a quadratic plateau model to one year/loc j62 <- droplevels(subset(dat, loc==\"Jackson\" & year==1962)) # ymax is maximum yield, M is the change point, k affects curvature m1 <-  nls(yield ~ ymax*(nitro > M) +            (ymax - (k/2) * (M-nitro)^2) * (nitro < M),            data= j62,            start=list(ymax=80, M=150, k=.01))  # Plot the raw data and model newdat <- data.frame(nitro=seq(0,max(dat$nitro))) p1 <- predict(m1, new=newdat) plot(yield ~ nitro, j62) lines(p1 ~ newdat$nitro, col=\"blue\") title(\"engelstad.nitro: quadratic plateau at Jackson 1962\")   # Optimum nitro level ignoring prices = 225 coef(m1)['M'] #>        M  #> 225.3404   # Optimum nitro level using $0.11 for N cost, $1.15 for grain price = 140 # Set the first derivative equal to N/corn price, k(M-nitro)=.11/1.15 coef(m1)['M']-(.11/1.15)/coef(m1)['k'] #>        M  #> 140.7837"},{"path":"/reference/evans.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"Uniformity trial sugarcane Mauritius.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"","code":"data(\"evans.sugarcane.uniformity\")"},{"path":"/reference/evans.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"data frame 710 observations following 3 variables. row row ordinate col column ordinate yield plot yield","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"field ratoon canes harvested 20-hole plots. Described letter Frank Yates written 21 May 1935. Field length: 5 plots x 50 feet (20 stools per plot; 30 inches stools) = 250 feet Field width: 142 plots x 5 feet = 710 feet data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 8.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"None.","code":""},{"path":"/reference/evans.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugarcane — evans.sugarcane.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   data(evans.sugarcane.uniformity)   dat <- evans.sugarcane.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(5*50)/(142*5), # true aspect           main=\"evans.sugarcane.uniformity\")    table( substring(dat$yield,3) ) # yields ending in 0,5 are much more common } # }"},{"path":"/reference/fan.stability.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize hybrids in China — fan.stability","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"Yield 13 hybrids, grown 10 locations across 2 years.  Conducted   Yunnan, China.","code":""},{"path":"/reference/fan.stability.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"data frame 260 observations following 5 variables. gen genotype maturity maturity, days year year loc location yield yield, Mg/ha","code":""},{"path":"/reference/fan.stability.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"Data mean 3 reps. data used conduct stability analysis yield. Used permission Manjit Kang.","code":""},{"path":"/reference/fan.stability.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"Fan, X.M. Kang, M.S. Chen, H. Zhang, Y. Tan, J. Xu, C. (2007).   Yield stability maize hybrids evaluated multi-environment trials Yunnan, China.   Agronomy Journal, 99, 220-228.   https://doi.org/10.2134/agronj2006.0144","code":""},{"path":"/reference/fan.stability.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize hybrids in China — fan.stability","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(fan.stability) dat <- fan.stability  dat$env <- factor(paste(dat$loc, dat$year, sep=\"\")) libs(lattice) dotplot(gen~yield|env, dat, main=\"fan.stability\")  libs(reshape2, agricolae) dm <- acast(dat, gen~env, value.var='yield') # Use 0.464 as pooled error from ANOVA.  Calculate yield mean/stability. stability.par(dm, rep=3, MSerror=0.464) # Table 5 of Fan et al.  } # }"},{"path":"/reference/federer.diagcheck.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat experiment with diagonal checks — federer.diagcheck","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"Wheat experiment augmented two check varieties diagonal strips.","code":""},{"path":"/reference/federer.diagcheck.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"data frame 180 observations following 4 variables. row row col column gen genotype, 120 levels yield yield","code":""},{"path":"/reference/federer.diagcheck.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"experiment conducted Matthew Reynolds, CIMMYT.    180 plots field, 60 diagonal checks (G121 G122)   120 new varieties. Federer used data multiple papers illustrate use   orthogonal polynomials model field trends related   genetic effects. Note: Federer Wolfinger (2003) provide SAS program analysis   data.  However, SAS program used analyze   data, results match results given Federer (1998)   Federer Wolfinger (2003).  differences slight,   suggests typographical error presentation data. R code provides results consistent SAS   code Federer & Wolfinger (2003) applied   version data. Plot dimensions given.","code":""},{"path":"/reference/federer.diagcheck.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"Federer, Walter T. 1998. Recovery interblock, intergradient,   intervariety information incomplete block lattice rectangle   design experiments. Biometrics, 54, 471–481.   https://doi.org/10.2307/3109756","code":""},{"path":"/reference/federer.diagcheck.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"Walter T Federer Russell D Wolfinger, 2003.   Augmented Row-Column Design Trend Analysis, chapter 28   Handbook Formulas Software Plant Geneticists     Breeders, Haworth Press.","code":""},{"path":"/reference/federer.diagcheck.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat experiment with diagonal checks — federer.diagcheck","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(federer.diagcheck)   dat <- federer.diagcheck   dat$check <- ifelse(dat$gen == \"G121\" | dat$gen==\"G122\", \"C\",\"N\")    # Show the layout as in Federer 1998.   libs(desplot)   desplot(dat, yield ~ col*row,           text=gen, show.key=FALSE, # aspect unknown           shorten='no', col=check, cex=.8, col.text=c(\"yellow\",\"gray\"),           main=\"federer.diagcheck\")     # Now reproduce the analysis of Federer 2003.      # Only to match SAS results   dat$row <- 16 - dat$row   dat <- dat[order(dat$col, dat$row), ]      # Add row / column polynomials to the data.   # The scaling factors sqrt() are arbitrary, but used to match SAS   nr <- length(unique(dat$row))   nc <- length(unique(dat$col))   rpoly <- poly(dat$row, degree=10) * sqrt(nc)   cpoly <- poly(dat$col, degree=10) * sqrt(nr)   dat <- transform(dat,                    c1 = cpoly[,1], c2 = cpoly[,2], c3 = cpoly[,3],                    c4 = cpoly[,4], c6 = cpoly[,6], c8 = cpoly[,8],                    r1 = rpoly[,1], r2 = rpoly[,2], r3 = rpoly[,3],                    r4 = rpoly[,4], r8 = rpoly[,8], r10 = rpoly[,10])   dat$trtn <- ifelse(dat$gen == \"G121\" | dat$gen==\"G122\", dat$gen, \"G999\")   dat$new <- ifelse(dat$gen == \"G121\" | dat$gen==\"G122\", \"N\", \"Y\")   dat <- transform(dat, trtn=factor(trtn), new=factor(new))      m1 <- lm(yield ~ c1 + c2 + c3 + c4 + c6 + c8            + r1 + r2 + r4 + r8 + r10            + c1:r1 + c2:r1 + c3:r1 + gen, data = dat)   # To get Type III SS use the following   # libs(car)   # car::Anova(m1, type=3) # Matches PROC GLM output   ##                Sum Sq  Df  F value    Pr(>F)       ## (Intercept)  538948   1 159.5804 3.103e-16 ***   ## c1            13781   1   4.0806 0.0494940 *     ## c2            51102   1  15.1312 0.0003354 ***   ## c3            45735   1  13.5419 0.0006332 ***   ## c4            24670   1   7.3048 0.0097349 **    ## ...         # lmer   libs(lme4,lucid)    # \"group\" for all data   dat$one <- factor(rep(1, nrow(dat)))      # lmer with bobyqa (default)   m2b <- lmer(yield ~ trtn + (0 + r1 + r2 + r4 + r8 + r10 +                                 c1 + c2 + c3 + c4 + c6 +                                 c8 + r1:c1 + r1:c2 + r1:c3 || one) +                 (1|new:gen),               data = dat,               control=lmerControl(check.nlev.gtr.1=\"ignore\"))   vc(m2b)   ##      grp        var1 var2     vcov  sdcor   ##  new.gen (Intercept) <NA>   2869    53.57   ##      one       r1:c3 <NA>   5532    74.37   ##    one.1       r1:c2 <NA>  58230   241.3   ##    one.2       r1:c1 <NA> 128000   357.8   ##    one.3          c8 <NA>   6456    80.35   ##    one.4          c6 <NA>   1400    37.41   ##    one.5          c4 <NA>   1792    42.33   ##    one.6          c3 <NA>   2549    50.49   ##    one.7          c2 <NA>   5942    77.08   ##    one.8          c1 <NA>      0     0   ##    one.9         r10 <NA>   1133    33.66   ##   one.10          r8 <NA>   1355    36.81   ##   one.11          r4 <NA>   2269    47.63   ##   one.12          r2 <NA>    241.8  15.55   ##   one.13          r1 <NA>   9200    95.92   ## Residual        <NA> <NA>   4412    66.42      # lmer with Nelder_Mead gives 'wrong' results   ## m2n <- lmer(yield ~ trtn + (0 + r1 + r2 + r4 + r8 + r10 +   ##             c1 + c2 + c3 + c4 + c6 + c8 + r1:c1 + r1:c2 + r1:c3 || one) +   ##             (1|new:gen)   ##             , data = dat,   ##             control=lmerControl(optimizer=\"Nelder_Mead\",   ##                                 check.nlev.gtr.1=\"ignore\"))   ## vc(m2n)   ##    groups        name variance   stddev   ##  new.gen  (Intercept)   3228    56.82   ##  one      r1:c3         7688    87.68   ##  one.1    r1:c2        69750   264.1   ##  one.2    r1:c1       107400   327.8   ##  one.3    c8            6787    82.38   ##  one.4    c6            1636    40.45   ##  one.5    c4           12270   110.8   ##  one.6    c3            2686    51.83   ##  one.7    c2            7645    87.43   ##  one.8    c1               0     0.0351   ##  one.9    r10           1976    44.45   ##  one.10   r8            1241    35.23   ##  one.11   r4            2811    53.02   ##  one.12   r2             928.2  30.47   ##  one.13   r1           10360   101.8   ##  Residual               4127    64.24    if(require(\"asreml\", quietly=TRUE)) {     libs(asreml,lucid)          m3 <- asreml(yield ~ -1 + trtn, data=dat,                  random = ~ r1 + r2 + r4 + r8 + r10 +                    c1 + c2 + c3 + c4 + c6 + c8 +                    r1:c1 + r1:c2 + r1:c3 + new:gen)     ## coef(m3)     ## # REML cultivar means.  Very similar to Federer table 2.     ## rev(sort(round(coef(m3)$fixed[3] + coef(m3)$random[137:256,],0)))     ## ## gen_G060 gen_G021 gen_G011 gen_G099 gen_G002     ## ##      974      949      945      944      942     ## ## gen_G118 gen_G058 gen_G035 gen_G111 gen_G120     ## ##      938      937      937      933      932     ## ## gen_G046 gen_G061 gen_G082 gen_G038 gen_G090     ## ##      932      931      927      927      926          ## vc(m3)     ## ##           effect component std.error z.ratio constr     ## ##        r1!r1.var   9201        13720    0.67    pos     ## ##        r2!r2.var    241.7       1059    0.23    pos     ## ##        r4!r4.var   2269         3915    0.58    pos     ## ##        r8!r8.var   1355         2627    0.52    pos     ## ##      r10!r10.var   1133         2312    0.49    pos     ## ##        c1!c1.var      0.01         0    4.8   bound     ## ##        c2!c2.var   5942         8969    0.66    pos     ## ##        c3!c3.var   2549         4177    0.61    pos     ## ##        c4!c4.var   1792         3106    0.58    pos     ## ##        c6!c6.var   1400         2551    0.55    pos     ## ##        c8!c8.var   6456         9702    0.67    pos     ## ##     r1:c1!r1.var 128000       189700    0.67    pos     ## ##     r1:c2!r1.var  58230        90820    0.64    pos     ## ##     r1:c3!r1.var   5531        16550    0.33    pos     ## ##  new:gen!new.var   2869         1367    2.1     pos     ## ##       R!variance   4412          915    4.8     pos   }    } # }"},{"path":"/reference/federer.tobacco.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"RCB tobacco, height plants exposed radiation","code":""},{"path":"/reference/federer.tobacco.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"data frame 56 observations following 4 variables. row row block block, numeric dose radiation dose, roentgens height height 20 plants, cm","code":""},{"path":"/reference/federer.tobacco.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"experiment conducted 1951 described Federer (1954).    treatment involved exposing tobacco seeds seven different doses   radiation.  seedlings transplanted field RCB   experiment 7 treatments 8 blocks.  physical layout   experiment 8 rows 7 columns. Shortly plants transplanted field became   apparent environmental gradient existed. response variable   total height (centimeters) 20 plants.","code":""},{"path":"/reference/federer.tobacco.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"Walter T Federer C S Schlottfeldt, 1954.   use covariance control gradients experiments.   Biometrics, 10, 282–290.   https://doi.org/10.2307/3001881","code":""},{"path":"/reference/federer.tobacco.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"R. D. Cook S. Weisberg (1999).   Applied Regression Including Computing Graphics. Walter T Federer Russell D Wolfinger, 2003.   PROC GLM PROC MIXED Codes Trend Analyses   Row-Column Designed Experiments,   Handbook Formulas Software Plant Geneticists     Breeders, Haworth Press. Paul N Hinz, (1987).   Nearest-Neighbor Analysis Practice,   Iowa State Journal Research, 62, 199–217.   https://lib.dr.iastate.edu/iowastatejournalofresearch/vol62/iss2/1","code":""},{"path":"/reference/federer.tobacco.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB of tobacco, height plants exposed to radiation — federer.tobacco","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(federer.tobacco) dat <- federer.tobacco  # RCB analysis.  Treatment factor not signficant. dat <- transform(dat, dosef=factor(dose), rowf=factor(row),                  blockf=factor(block)) m1 <- lm(height ~ blockf + dosef, data=dat) anova(m1)  # RCB residuals show strong spatial trends libs(desplot) dat$resid <- resid(m1) desplot(dat, resid ~ row * block,         # aspect unknown         main=\"federer.tobacco\")   # Row-column analysis.  Treatment now significant m2 <- lm(height ~ rowf + blockf + dosef, data=dat) anova(m2)  } # }"},{"path":"/reference/fisher.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"Multi-environment trial 5 barley varieties, 6 locations, 2 years","code":""},{"path":"/reference/fisher.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"","code":"data(\"fisher.barley\")"},{"path":"/reference/fisher.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"data frame 60 observations following 4 variables. yield yield, bu/ac gen genotype/variety, 5 levels env environment/location, 2 levels year year, 1931/1932","code":""},{"path":"/reference/fisher.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"Trials 5 varieties barley conducted 6 stations   Minnesota years 1931-1932. subset Immer's barley data.  yield values   totals 3 reps (Immer gave average yield 3 reps).","code":""},{"path":"/reference/fisher.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"Ronald Fisher (1935).   Design Experiments.","code":""},{"path":"/reference/fisher.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"George Fernandez (1991).   Analysis Genotype x Environment Interaction Stability Estimates.   Hort Science, 26, 947-950. F. Yates & W. G. Cochran (1938).   Analysis Groups Experiments.   Journal Agricultural Science, 28, 556-580, table 1.   https://doi.org/10.1017/S0021859600050978 G. K. Shukla, 1972.   statistical aspects partitioning genotype-environmental   components variability.   Heredity, 29, 237-245. Table 1.   https://doi.org/10.1038/hdy.1972.87","code":""},{"path":"/reference/fisher.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of 5 barley varieties, 6 locations, 2 years — fisher.barley","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(fisher.barley)   dat <- fisher.barley    libs(dplyr,lattice)   # Yates 1938 figure 1. Regression on env mean   # Sum years within loc   dat2 <- aggregate(yield ~ gen + env, data=dat, FUN=sum)   # Avg within env   emn <- aggregate(yield ~ env, data=dat2, FUN=mean)   dat2$envmn <- emn$yield[match(dat2$env, emn$env)]   xyplot(yield ~ envmn, dat2, group=gen, type=c('p','r'),          main=\"fisher.barley - stability regression\",          xlab=\"Environment total\", ylab=\"Variety mean\",          auto.key=list(columns=3))     # calculate stability according to the sum-of-squares approach used by   # Shukla (1972), eqn 11. match to Shukla, Table 4, M.S. column   # also matches fernandez, table 3, stabvar column   libs(dplyr)   dat2 <- dat   dat2 <- group_by(dat2, gen,env)   dat2 <- summarize(dat2, yield=sum(yield)) # means across years   dat2 <- group_by(dat2, env)   dat2 <- mutate(dat2, envmn=mean(yield)) # env means   dat2 <- group_by(dat2, gen)   dat2 <- mutate(dat2, genmn=mean(yield)) # gen means   dat2 <- ungroup(dat2)   dat2 <- mutate(dat2, grandmn=mean(yield)) # grand mean   # correction factor overall   dat2 <- mutate(dat2, cf = sum((yield - genmn - envmn + grandmn)^2))   t=5; s=6 # t genotypes, s environments   dat2 <- group_by(dat2, gen)   dat2 <- mutate(dat2, ss=sum((yield-genmn-envmn+grandmn)^2))   # divide by 6 to scale down to plot-level   dat2 <- mutate(dat2, sig2i = 1/((s-1)*(t-1)*(t-2)) * (t*(t-1)*ss-cf)/6)   dat2[!duplicated(dat2$gen),c('gen','sig2i')]       ##       <chr>     <dbl>   ## 1 Manchuria  25.87912   ## 2  Peatland  75.68001   ## 3  Svansota  19.59984   ## 4     Trebi 225.52866   ## 5    Velvet  22.73051    if(require(\"asreml\", quietly=TRUE)) {     # mixed model approach gives similar results (but not identical)     libs(asreml,lucid)      dat2 <- dat     dat2 <- dplyr::group_by(dat2, gen,env)     dat2 <- dplyr::summarize(dat2, yield=sum(yield)) # means across years     dat2 <- dplyr::arrange(dat2, gen)          # G-side     m1g <- asreml(yield ~ gen, data=dat2,                   random = ~ env + at(gen):units,                   family=asr_gaussian(dispersion=1.0))     m1g <- update(m1g)     summary(m1g)$varcomp[-1,1:2]/6     #                            component std.error     # at(gen, Manchuria):units  33.8145031  27.22721     # at(gen, Peatland):units   70.4489092  50.52680     # at(gen, Svansota):units   25.2728568  21.92919     # at(gen, Trebi):units     231.6981702 150.80464     # at(gen, Velvet):units     13.9325646  16.58571     # units!R                    0.1666667        NA          # R-side estimates = G-side estimate + 0.1666 (resid variance)     m1r <- asreml(yield ~ gen, data=dat2,                   random = ~ env,                   residual = ~ dsum( ~ units|gen))     m1r <- update(m1r)     summary(m1r)$varcomp[-1,1:2]/6     #                     component std.error     # gen_Manchuria!R  34.00058  27.24871     # gen_Peatland!R   70.65501  50.58925     # gen_Svansota!R   25.42022  21.88606     # gen_Trebi!R     231.85846 150.78756     # gen_Velvet!R     14.08405  16.55558   }    } # }"},{"path":"/reference/fisher.latin.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square experiment on mangolds — fisher.latin","title":"Latin square experiment on mangolds — fisher.latin","text":"Latin square experiment mangolds.  Used R. . Fisher.","code":""},{"path":"/reference/fisher.latin.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Latin square experiment on mangolds — fisher.latin","text":"","code":"data(\"fisher.latin\")"},{"path":"/reference/fisher.latin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square experiment on mangolds — fisher.latin","text":"data frame 25 observations following 4 variables. trt treatment factor, 5 levels yield yield row row col column","code":""},{"path":"/reference/fisher.latin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Latin square experiment on mangolds — fisher.latin","text":"Yields root weights.  Data originally collected Mercer   Hall part uniformity trial. data data columns 1-5, rows 16-20,   mercer.mangold.uniformity data package. Unsurprisingly, significant treatment differences.","code":""},{"path":"/reference/fisher.latin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square experiment on mangolds — fisher.latin","text":"Mercer, WB Hall, AD, 1911.   experimental error field trials   Journal Agricultural Science, 4, 107-132. Table 1.   http::/doi.org/10.1017/S002185960000160X R. . Fisher. Statistical Methods Research Workers.","code":""},{"path":"/reference/fisher.latin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square experiment on mangolds — fisher.latin","text":"","code":"library(agridat)  data(fisher.latin) dat <- fisher.latin  # Standard latin-square analysis m1 <- lm(yield ~ trt + factor(row) + factor(col), data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: yield #>             Df Sum Sq Mean Sq F value   Pr(>F)    #> trt          4  330.2   82.56  0.5647 0.692978    #> factor(row)  4 4240.2 1060.06  7.2511 0.003294 ** #> factor(col)  4  701.8  175.46  1.2002 0.360412    #> Residuals   12 1754.3  146.19                     #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1"},{"path":"/reference/forster.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"Uniformity trial wheat Australia.","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"","code":"data(\"forster.wheat.uniformity\")"},{"path":"/reference/forster.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"data frame 160 observations following 3 variables. row row ordinate col column ordinate yield yield, ounces per plot","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"experiment repeat classic experiment Mercer   Hall. Conducted State Research Farm, Werribee, Victoria, Australia. Planted 1926. Harvested 1927. acre land selected. plot   one double-sown row. plot 30 x 20 links. whole experiment 300 x 320 links. Near west edge, strip damaged cart tracks excluded. field marked quarters one quarter subdivided   harvested time. quarter cut 5 strips 8 plots. Field length: 16 plots * 20 links = 320 links (211 feet). Field width: 10 plots * 30 links = 300 links (197 feet). Note: clear strip \"yards wide\" omitted   yet dimensions whole area still 300 x 320 links. Since omitted strip 1/3 width plot, (agridat   authors) decided ignore omitted strip. electronic data manually typed source 2023-04-12.   Summary statistics electronic data differ slightly   summaries Forster, indicating possible typos rounding   printed yield values paper. Values checked hand   match paper.","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"Forster, H. C. (Howard Carlyle), - Vasey, . J. (1928).   Experimental error field trials Australia.   Proceedings Royal Society Victoria. New series, 40, 70–80.   Table 1.   https://www.biodiversitylibrary.org/page/54367272","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"None","code":""},{"path":"/reference/forster.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat in Australia. — forster.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   require(agridat)   data(forster.wheat.uniformity)   dat <- forster.wheat.uniformity      mean(dat$yield)   # 135.97 # Forster says 136.5   sd(dat$yield)   # 10.68  # Forster says 10.9      # Compare to Forster table 3.  Slight differences.   table( cut(dat$yield,              breaks = c(106,111,116,121,126,131,136,141,                         146,151,156,161,166)+.5) )   # Forster has 5 plots in the 157-161 bin, but we show 6.   # I filtered the data for this bin and verified our data   # matches the layout in the paper.   filter(dat, yield>156.5, yield<161.5)    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(16*20)/(10*30), # true aspect           main=\"forster.wheat.uniformity\") } # }"},{"path":"/reference/foulley.calving.html","id":null,"dir":"Reference","previous_headings":"","what":"Calving difficulty by calf sex and age of dam — foulley.calving","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"Calving difficulty calf sex age dam","code":""},{"path":"/reference/foulley.calving.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"","code":"data(\"foulley.calving\")"},{"path":"/reference/foulley.calving.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"data frame 54 observations following 4 variables. sex calf gender age dam age factor, 9 levels score score birthing difficulty, S1 < S2 < S3 count count births category","code":""},{"path":"/reference/foulley.calving.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"data calving difficulty scores purebred US Simmental   cows. raw data show greatest calving difficulty young   dams male calves.   Differences male/female calves decreased age dam. goodness fit can improved using scaling effect age   dam. Note: paper Foulley Gianola '21943' count   score 1, F, >8.  data uses '20943' marginal totals   data match marginal totals given paper. Used permission Jean-Louis Foulley.","code":""},{"path":"/reference/foulley.calving.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"JL Foulley, D Gianola (1996).   Statistical Analysis Ordered Categorical Data via Structured   Heteroskedastic Threshold Model.   Genet Sel Evol, 28, 249–273.   https://doi.org/10.1051/gse:19960304","code":""},{"path":"/reference/foulley.calving.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Calving difficulty by calf sex and age of dam — foulley.calving","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(foulley.calving) dat <- foulley.calving  ## Plot d2 <- transform(dat,                 age=ordered(age, levels=c(\"0.0-2.0\",\"2.0-2.5\",\"2.5-3.0\",                                           \"3.0-3.5\",\"3.5-4.0\",                                           \"4.0-4.5\",\"4.5-5.0\",\"5.0-8.0\",\"8.0+\")),                 score=ordered(score, levels=c('S1','S2','S3'))) libs(reshape2) d2 <- acast(dat, sex+age~score, value.var='count') d2 <- prop.table(d2, margin=1) libs(lattice) thm <- simpleTheme(col=c('skyblue','gray','pink')) barchart(d2, par.settings=thm, main=\"foulley.calving\",          xlab=\"Frequency of calving difficulty\", ylab=\"Calf gender and dam age\",          auto.key=list(columns=3, text=c(\"Easy\",\"Assited\",\"Difficult\")))   ## Ordinal multinomial model  libs(ordinal) m2 <- clm(score ~ sex*age, data=dat, weights=count, link='probit') summary(m2)  ##   Coefficients: ##                  Estimate Std. Error z value Pr(>|z|)     ## sexM             0.500605   0.015178  32.982  < 2e-16 *** ## age2.0-2.5      -0.237643   0.013846 -17.163  < 2e-16 *** ## age2.5-3.0      -0.681648   0.018894 -36.077  < 2e-16 *** ## age3.0-3.5      -0.957138   0.018322 -52.241  < 2e-16 *** ## age3.5-4.0      -1.082520   0.024356 -44.446  < 2e-16 *** ## age4.0-4.5      -1.146834   0.022496 -50.981  < 2e-16 *** ## age4.5-5.0      -1.175312   0.028257 -41.594  < 2e-16 *** ## age5.0-8.0      -1.280587   0.016948 -75.559  < 2e-16 *** ## age8.0+         -1.323749   0.024079 -54.974  < 2e-16 *** ## sexM:age2.0-2.5  0.003035   0.019333   0.157  0.87527     ## sexM:age2.5-3.0 -0.076677   0.026106  -2.937  0.00331 **  ## sexM:age3.0-3.5 -0.080657   0.024635  -3.274  0.00106 **  ## sexM:age3.5-4.0 -0.135774   0.032927  -4.124 3.73e-05 *** ## sexM:age4.0-4.5 -0.124303   0.029819  -4.169 3.07e-05 *** ## sexM:age4.5-5.0 -0.198897   0.038309  -5.192 2.08e-07 *** ## sexM:age5.0-8.0 -0.135524   0.022804  -5.943 2.80e-09 *** ## sexM:age8.0+    -0.131033   0.031852  -4.114 3.89e-05 *** ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Threshold coefficients: ##       Estimate Std. Error z value ## S1|S2  0.82504    0.01083   76.15 ## S2|S3  1.52017    0.01138  133.62  ## Note 1.52017 - 0.82504 = 0.695 matches Foulley's '2-3' threshold estimate  predict(m2) # probability of each category    } # }"},{"path":"/reference/fox.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"Wheat yields 22 varieties 14 sites Australia","code":""},{"path":"/reference/fox.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"","code":"data(\"fox.wheat\")"},{"path":"/reference/fox.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"data frame 308 observations following 4 variables. gen genotype/variety factor, 22 levels site site factor, 14 levels yield yield, tonnes/ha state state Australia","code":""},{"path":"/reference/fox.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"1975 Interstate Wheat Variety trial Australia used RCB design   4 blocks, 22 varieties 14 sites.  Wagga represented twice,   trials sown May June. 22 varieties highly selected represent considerable   genetic diversity four different groups.   () University Sydney: Timson, Songlen, Gamenya.   (ii) widely grown Mallee soils: Heron Halberd.   (iii) late maturing varieties Victoria: Pinnacle, KL-21, JL-157.   (iv) Mexican parentage: WW-15  Oxley.","code":""},{"path":"/reference/fox.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"Fox, P.N. Rathjen, .J. (1981).   Relationships sites used interstate wheat variety trials.   Australian Journal Agricultural Research, 32, 691-702. Electronic version supplied Jonathan Godfrey.","code":""},{"path":"/reference/fox.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat, 22 varieties at 14 sites in Australia — fox.wheat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(fox.wheat) dat <- fox.wheat  # Means of varieties.  Slight differences from Fox and Rathjen suggest # they had more decimals of precision than shown. tapply(dat$yield, dat$gen, mean)  # Calculate genotype means, merge into the data genm <- tapply(dat$yield, dat$gen, mean) dat$genm <- genm[match(dat$gen, names(genm))]  # Calculate slopes for each site.  Matches Fox, Table 2, Col A. m1 <- lm(yield~site+site:genm, data=dat) sort(round(coef(m1)[15:28],2), dec=TRUE)  # Figure 1 of Fox libs(lattice) xyplot(yield~genm|state, data=dat, type=c('p','r'), group=site,        auto.key=list(columns=4),        main=\"fox.wheat\", xlab=\"Variety mean across all sites\",        ylab=\"Variety yield at each site within states\")  } # }"},{"path":"/reference/garber.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"Uniformity trials oat hay wheat grain, West Virginia   Agricultural Experiment Station, 1923-1924, land.","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"data frame 270 observations following 4 variables. row row col column plot plot number year year crop crop yield yield (pounds bu/ac)","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"experiments conducted West Virginia Agricultural   Experiment Station Maggie, West Virginia. Note, Garber et al (1926) Garber et al (1931) describe uniformity   trials field, experimental plot numbers   two papers different, indicating different parts field. data 1923 1924 given Garber (1926). data 1927, 1928, 1929 given Garber (1931). data given source papers relative deviations   mean, converted absolute yields   package. First paper: Garber (1926) plot 68 feet x 21 feet. discarding 3.5 foot border   sides, harvested area 61 feet x 14 feet. plots   laid double series 14-foot roadway   plots. example, columns 1 & 2 side--side, 14 foot   road, columns 3 & 4, 14 foot road, columns 5 & 6. Note: orientation plots (68x21) educated guess.   orientation 21x68, field extremely narrow   long. Field width: 6 plots * 68 feet + 14 ft/roadway * 2 = 436 feet Field length: 45 plots * 21 feet/plot = 945 feet Garber said: \"Plots 211 214, 261 264, [note, rows   11-14, columns 5-6] inclusive, eliminated study   fact years ago straw stack stood   vicinity...undoubtedly accounts relatively high yields   plots 261 264, inclusive.\" 1923 oat hay, yield pounds per acre data oat hay given Table 5 mean-subtracted   yields pounds per acre plot. oat   yield row 22, column 5 given +59.7.  obviously   incorrect, since negative yields end '.7' positive   yields ended '.3'.  used -59.7 centered yield value   added mean 1883.7 (p. 259) centered yields obtain   absolute yields pounds per acre. 1924 wheat, yield bushels per acre data wheat given bushels per acre, expressed   deviations mean yield (15.6 bu).   added mean plot data. Second paper: Garber (1926) 1927 corn, 1928 oats, 1929 wheat field 10 plots wide, 84 plots tall. Field width: 10 plots * 68 feet + 4 roads * 14 feet = 736 feet. Field length: 84 plots * 21 feet + 3 roads * 14 feet = 1806 feet.","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"Garber, R.J. Mcllvaine, T.C. Hoover, M.M. (1926).   study soil heterogeneity experiment plots.   Jour Agr Res, 33, 255-268. Tables 3, 5.   https://naldc.nal.usda.gov/download/IND43967148/PDF Garber, R. J. T. C. McIlvaine M. M. Hoover (1931).   Method Laying Experimental Plats.   Journal American Society Agronomy, 23, 286-298,   https://archive.org/details/.ernet.dli.2015.229753/page/n299","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"None","code":""},{"path":"/reference/garber.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of oat hay and wheat grain — garber.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(garber.multi.uniformity)   dat <- garber.multi.uniformity    ## aggregate(yield~year, data=dat, FUN=mean)   ##   year      yield   ## 1 1923 1883.30741   ## 2 1924   15.58296   ## 3 1927   76.28965   ## 4 1928   32.81415   ## 5 1929   19.44650    libs(desplot)   desplot(dat, yield ~ col*row, subset=year==1923,           flip=TRUE, tick=TRUE, aspect=945/436, # true aspect           main=\"garber.multi.uniformity 1923 oats\")   desplot(dat, yield ~ col*row, subset=year==1924,           flip=TRUE, tick=TRUE, aspect=945/436, # true aspect           main=\"garber.multi.uniformity 1924 wheat\")   desplot(dat, yield ~ col*row|year, subset=year >= 1927,           flip=TRUE, tick=TRUE, aspect=1806/736, # true aspect           main=\"garber.multi.uniformity 1927-1929\")    # Correlation of same plots in 1923 vs 1924. Garber has 0.37   # cor(subset(dat, year==1923)$yield,   #     subset(dat, year==1924)$yield ) # .37   # Garber 1931 table 2 has .58, .20   # cor(subset(dat, year==1927)$yield,   #     subset(dat, year==1928)$yield, use=\"pair\" ) # .58   # cor(subset(dat, year==1927)$yield,   #     subset(dat, year==1929)$yield, use=\"pair\" ) # .19  } # }"},{"path":"/reference/gartner.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield monitor data from a corn field in Minnesota — gartner.corn","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"Yield monitor data corn field Minnesota","code":""},{"path":"/reference/gartner.corn.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"","code":"data(\"gartner.corn\")"},{"path":"/reference/gartner.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"data frame 4949 observations following 8 variables. long longitude lat latitude mass grain mass flow per second, pounds time GPS time, seconds seconds seconds elapsed datum dist distance traveled datum, inches moist grain moisture, percent elev elevation, feet","code":""},{"path":"/reference/gartner.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"data collected 5 Nov 2011 corn field south Mankato,   Minnesota, using combine-mounted yield monitor.   https://www.google.com/maps/place/43.9237575,-93.9750632 harvested swath 12 rows wide = 360 inches. Timestamp 0 = 5 Nov 2011, 12:38:03 Central Time.   Timestamp 16359 = 4.54 hours later. Yield calculated total dry weight (corrected 15.5 percent   moisture), divided 56 pounds (get bushels), divided   harvested area: drygrain = [massflow * seconds * (100-moisture) / (100-15.5)] / 56   harvested area = (distance * swath width) / 6272640   yield = drygrain / area","code":""},{"path":"/reference/gartner.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"University Minnesota Precision Agriculture Center.   Retrieved 27 Aug 2015 https://web.archive.org/web/20100717003256/https://www.soils.umn.edu/academics/classes/soil4111/files/yield_a.xls Used via license: Creative Commons -SA 3.0.","code":""},{"path":"/reference/gartner.corn.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"Suman Rakshit, Adrian Baddeley, Katia Stefanova, Karyn Reeves, Kefei   Chen, Zhanglong Cao, Fiona Evans, Mark Gibberd (2020).   Novel approach analysis spatially-varying treatment effects   -farm experiments.   Field Crops Research, 255, 15 September 2020, 107783.   https://doi.org/10.1016/j.fcr.2020.107783","code":""},{"path":"/reference/gartner.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield monitor data from a corn field in Minnesota — gartner.corn","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(gartner.corn)   dat <- gartner.corn    # Calculate yield from mass & moisture   dat <- transform(dat,   yield=(mass*seconds*(100-moist)/(100-15.5)/56)/(dist*360/6272640))    # Delete low yield outliers   dat <- subset(dat, yield >50)    # Group yield into 20 bins for red-gray-blue colors   medy <- median(dat$yield)   ncols <- 20   wwidth <- 150   brks <- seq(from = -wwidth/2, to=wwidth/2, length=ncols-1)   brks <- c(-250, brks, 250) # 250 is safe..we cleaned data outside ?(50,450)?   yldbrks <- brks + medy   dat <- transform(dat, yldbin = as.numeric(cut(yield, breaks= yldbrks)))   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   dat$yieldcolor = redblue(ncols)[dat$yldbin]    # Polygons for soil map units   # Go to: https://websoilsurvey.nrcs.usda.gov/app/WebSoilSurvey.aspx   # Click: Lat and Long. 43.924, -93.975   # Click the little AOI rectangle icon.  Drag around the field   # In the AOI Properties, enter the Name: Gartner   # Click the tab Soil Map to see map unit symbols, names   # Click: Download Soils Data.  Click: Create Download Link.   # Download the zip file and find the soilmu_a_aoi files.    # Read shape files   libs(sf)   fname <- system.file(package=\"agridat\", \"files\", \"gartner.corn.shp\")   shp <- sf::st_read( fname )    # Annotate soil map units. Coordinates chosen by hand.   mulabs = data.frame(     name=c(\"110\",\"319\",\"319\",\"230\",\"105C\",\"110\",\"211\",\"110\",\"211\",\"230\",\"105C\"),     x = c(-93.97641, -93.97787, -93.97550, -93.97693, -93.97654, -93.97480,           -93.97375, -93.978284, -93.977617, -93.976715, -93.975929),     y = c(43.92185, 43.92290, 43.92358, 43.92445, 43.92532, 43.92553,           43.92568, 43.922163, 43.926427, 43.926993, 43.926631) )   mulabs = st_as_sf( mulabs, coords=c(\"x\",\"y\"), crs=4326)   mulabs = st_transform(mulabs, 2264)    # Trim top and bottom ends of the field   dat <- subset(dat, lat < 43.925850 & lat > 43.921178)   # Colored points for yield   dat <- st_as_sf(dat, coords=c(\"long\",\"lat\"), crs=4326)    libs(ggplot2)      ggplot() +     geom_sf(data=dat, aes(col=yieldcolor) ) +     scale_color_identity() +     geom_sf_label(data=mulabs, aes(label=name), cex=2) +     geom_sf(data=shp[\"MUSYM\"], fill=\"transparent\") +     ggtitle(\"gartner.corn\") +     theme_classic()      if(0){     # Draw a 3D surface.  Clearly shows the low drainage area     # Re-run the steps above up, stop before the \"Colored points\" line.     libs(rgl)     dat <- transform(dat, x=long-min(long), y=lat-min(lat), z=elev-min(elev))     clear3d()     points3d(dat$x, dat$y, dat$z/50000,              col=redblue(ncols)[dat$yldbin])     axes3d()     title3d(xlab='x',ylab='y',zlab='elev')     close3d()   }  } # }"},{"path":"/reference/gathmann.bt.html","id":null,"dir":"Reference","previous_headings":"","what":"Impact of Bt corn on non-target species — gathmann.bt","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"Impact Bt corn non-target species","code":""},{"path":"/reference/gathmann.bt.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"data frame 16 observations following 3 variables. gen genotype/maize, Bt ISO thysan thysan abundance aranei aranei abundance","code":""},{"path":"/reference/gathmann.bt.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"experiment involved comparing Bt maize near-isogenic   control variety. Species abundances measured Thysanoptera (thrips)   Araneida (spiders) 8 different plots. response probably mean across repeated measurements. Used permission Achim Gathmann.","code":""},{"path":"/reference/gathmann.bt.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"L. . Hothorn, 2005.   Evaluation Bt-Maize Field Trials Proof Safety.   https://www.seedtest.org/upload/cms/user/presentation7Hothorn.pdf","code":""},{"path":"/reference/gathmann.bt.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Impact of Bt corn on non-target species — gathmann.bt","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gathmann.bt) dat <- gathmann.bt   # EDA suggests Bt vs ISO is significant for thysan, not for aranei libs(lattice) libs(reshape2) d2 <- melt(dat, id.var='gen') bwplot(value ~ gen|variable, d2,        main=\"gathmann.bt\", ylab=\"Insect abundance\",        panel=function(x,y,...){          panel.xyplot(jitter(as.numeric(x)),y,...)          panel.bwplot(x,y,...)        },        scales=list(relation=\"free\"))   if(0){    # ----- Parametric CI.  Thysan significant, aranei not significant.   libs(equivalence)    th0 <- with(dat, tost(thysan[1:8], thysan[9:16], alpha=.05, paired=FALSE))   lapply(th0[c(\"estimate\",\"tost.interval\")], round, 2)   # 14.28-8.72=5.56, (2.51, 8.59) # match Gathmann p. 11    ar0 <- with(dat, tost(aranei[1:8], aranei[9:16], alpha=.05, epsilon=.4))   lapply(ar0[c(\"estimate\",\"tost.interval\")], round, 2)   # .57-.47=.10, (-0.19, 0.40) # match Gathmann p. 11    # ----- Non-parametric exact CI.  Same result.   libs(coin)    th1 <- wilcox_test(thysan ~ gen, data=dat, conf.int=TRUE, conf.level=0.90)   lapply(confint(th1), round, 2)   # 6.36, (2.8, 9.2) # Match Gathmann p. 11    ar1 <- wilcox_test(aranei ~ gen, data=dat, conf.int=TRUE, conf.level=0.90)   lapply(confint(ar1), round, 2)   # .05 (-.2, .4)         # ----- Log-transformed exact CI. Same result.   th2 <- wilcox_test(log(thysan) ~ gen, data=dat, alternative=c(\"two.sided\"),                      conf.int=TRUE, conf.level=0.9)   lapply(confint(th2), function(x) round(exp(x),2))   # 1.66, (1.38, 2.31) # Match Gathmann p 11      # ----- Log-transform doesn't work on aranei, but asinh(x/2) does   ar2 <- wilcox_test(asinh(aranei/2) ~ gen, data=dat,                      alternative=c(\"two.sided\"),                      conf.int=TRUE, conf.level=0.9)   lapply(confint(ar2), function(x) round(sinh(x)*2,1))  }  } # }"},{"path":"/reference/gauch.soy.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"New York soybean yields, 1977 1988, 7 genotypes, 55   environments (9 loc, 12 years), 2-3 reps.","code":""},{"path":"/reference/gauch.soy.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"data frame 1454 observations following 4 variables. yield yield, kg/ha rep repeated measurement gen genotype, 7 levels env environment, 55 levels year year, 77-88 loc location, 10 levels","code":""},{"path":"/reference/gauch.soy.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"Soybean yields 13 percent moisture 7 genotypes 55   environments 4 replicates.  environments 2 3   replicates.  experiment RCB design, plots   missing many soybean varieties experiment.   replications appear random order _NOT_ define blocks.   Environment names combination first letter   location name last two digits year.  location codes   :   =Aurora, C=Chazy, D=Riverhead, E=Etna, G=Geneseo,   =Ithica, L=Lockport, N=Canton, R=Romulus, V=Valatie.   Plots 7.6 m long, four rows wide (middle two rows   harvested). data widely used (various subsets) promote   benefits AMMI (Additive Main Effects Multiplicative Interactions)   analyses. gen x env means Table 1 (Zobel et al 1998) least-squares   means (personal communication). Retrieved Sep 2011   https://www.microcomputerpower.com/matmodel/matmodelmatmodel_sample_.html Used permission Hugh Gauch.","code":""},{"path":"/reference/gauch.soy.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"Zobel, RW Wright, MJ Gauch Jr, HG. 1998.   Statistical analysis yield trial.   Agronomy journal, 80, 388-393.   https://doi.org/10.2134/agronj1988.00021962008000030002x","code":""},{"path":"/reference/gauch.soy.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"None","code":""},{"path":"/reference/gauch.soy.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of soybeans in New York, 1977 to 1988 — gauch.soy","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(gauch.soy)   dat <- gauch.soy    ## dat <- transform(dat,   ##                  year = substring(env, 2),   ##                  loc = substring(env, 1, 1))    # AMMI biplot   libs(agricolae)   # Figure 1 of Zobel et al 1988, means vs PC1 score   dat2 <- droplevels(subset(dat, is.element(env, c(\"A77\",\"C77\",\"V77\",        \"V78\",\"A79\",\"C79\",\"G79\",\"R79\",\"V79\",\"A80\",\"C80\",\"G80\",\"L80\",\"D80\",        \"R80\",\"V80\",\"A81\",\"C81\",\"G81\",\"L81\",\"D81\",\"R81\",\"V81\",\"A82\",\"L82\",        \"G82\",\"V82\",\"A83\",\"I83\",\"G83\",\"A84\",\"N84\",\"C84\",\"I84\",\"G84\"))))    m2 <- with(dat2, AMMI(env, gen, rep, yield))   bip <- m2$biplot   with(bip, plot(yield, PC1, type='n', main=\"gauch.soy -- AMMI biplot\"))   with(bip, text(yield, PC1, rownames(bip),                  col=ifelse(bip$type==\"GEN\", \"darkgreen\", \"blue\"),                  cex=ifelse(bip$type==\"GEN\", 1.5, .75))) } # }"},{"path":"/reference/george.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-location/year breeding trial in California — george.wheat","title":"Multi-location/year breeding trial in California — george.wheat","text":"Multi-location/year breeding trial California","code":""},{"path":"/reference/george.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-location/year breeding trial in California — george.wheat","text":"","code":"data(\"george.wheat\")"},{"path":"/reference/george.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-location/year breeding trial in California — george.wheat","text":"data frame 13996 observations following 5 variables. gen genotype number year year loc location block block yield yield per plot","code":""},{"path":"/reference/george.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-location/year breeding trial in California — george.wheat","text":"nice example data breeding trial,   check genotypes kepts whole experiment,   genotypes enter leave breeding program.  data highly   unbalanced respect genotypes--environments. Results late-stage small-trials 211 genotypes wheat   California, conducted 9 locations years 2004-2018. trial RCB 4 blocks. authors used data look GGE biplots across years   concluded repeatable genotype--location patterns weak,   therefore California cereal production region large,   unstable, mega-environment. Data downloaded 2019-10-29 Dryad,   https://doi.org/10.5061/dryad.bf8rt6b.   Data public domain.","code":""},{"path":"/reference/george.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-location/year breeding trial in California — george.wheat","text":"Nicholas George Mark Lundy (2019).   Quantifying Genotype x Environment Effects Long-Term Common Wheat Yield Trials Agroecologically Diverse Production Region.   Crop Science, 59, 1960-1972.   https://doi.org/10.2135/cropsci2019.01.0010","code":""},{"path":"/reference/george.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-location/year breeding trial in California — george.wheat","text":"None","code":""},{"path":"/reference/george.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-location/year breeding trial in California — george.wheat","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   libs(lattice, reshape2)   data(george.wheat)   dat <- george.wheat      dat$env <- paste0(dat$year, \".\", dat$loc)   # average reps, cast to matrix   mat <- reshape2::acast(dat, gen ~ env, value.var=\"yield\", fun=mean, na.rm=TRUE)   lattice::levelplot(mat, aspect=\"m\",                       main=\"george.wheat\", xlab=\"genotype\", ylab=\"environment\",                      scales=list(x=list(cex=.3,rot=90),y=list(cex=.5)))  } # }"},{"path":"/reference/giles.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Straw length and ear emergence for wheat genotypes. — giles.wheat","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"Straw length ear emergence wheat genotypes.  Data   unbalanced respect experiment year genotype.","code":""},{"path":"/reference/giles.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"","code":"data(\"giles.wheat\")"},{"path":"/reference/giles.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"data frame 247 observations following 4 variables. gen genotype. Note, numeric! env environment straw straw length emergence ear emergence, Julian date","code":""},{"path":"/reference/giles.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"Highly unbalanced data straw length ear emergence date   wheat genotypes. 'genotype' column called 'Accession number' original data.   genotypes chosen represent range variation   trait. Julian date found preferable methods (  days sowing). Piepho (2003) fit bilinear model straw emergence data.    similar Finlay-Wilkinson regression.","code":""},{"path":"/reference/giles.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"R. Giles (1990).   Utilization unreplicated observations agronomic characters wheat germplasm collection.   : Wheat Genetic Resources. Meeting Diverse Needs.   Wiley, Chichester, U.K., pp.113-130.","code":""},{"path":"/reference/giles.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"Piepho, HP (2003).   Model-based mean adjustment quantitative germplasm evaluation data.   Genetic Resources Crop Evolution, 50, 281-290.   https://doi.org/10.1023/:1023503900759","code":""},{"path":"/reference/giles.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Straw length and ear emergence for wheat genotypes. — giles.wheat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(giles.wheat) dat <- giles.wheat dat <- transform(dat, gen=factor(gen)) dat_straw <- droplevels( subset(dat, !is.na(straw)) ) dat_emerg <- droplevels( subset(dat, !is.na(emergence)) )  # Traits are not related # with(dat, plot(straw~emergence))  # Show unbalancedness of data libs(lattice, reshape2) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(acast(dat_straw, env ~ gen, value.var='straw'),           col.regions=redblue,           scales=list(x=list(rot=90)),           xlab=\"year\", ylab=\"genotype\",           main=\"giles.wheat - straw length\")    # ----- Analysis of straw length -----  libs(emmeans)  # Mean across years. Matches Piepho Table 7 'Simple' m1 = lm(straw ~ gen, data=dat_straw) emmeans(m1, 'gen')  # Simple two-way model.  NOT the bi-additive model of Piepho. m2 = lm(straw ~ gen + env, data=dat_straw) emmeans(m2, 'gen')  # Bi-additive model. Matches Piepho Table 6, rows (c) libs(gnm) m3 <- gnm(straw ~ env + Mult(gen,env), data=dat_straw) cbind(adjusted=round(fitted(m3),0), dat_straw)   # ----- Analysis of Ear emergence -----  # Simple two-way model.  m4 = lm(emergence ~ 1 + gen + env, data=dat_emerg) emmeans(m4, c('gen','env')) # Matches Piepho Table 9. rpws (c) emmeans(m4, 'gen') # Match Piepho table 10, Least Squares column  } # }"},{"path":"/reference/gilmour.serpentine.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"RCB experiment wheat South Australia, strong spatial   variation serpentine row/column effects.","code":""},{"path":"/reference/gilmour.serpentine.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"data frame 330 observations following 5 variables. col column row row rep replicate factor, 3 levels gen wheat variety, 108 levels yield yield","code":""},{"path":"/reference/gilmour.serpentine.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"randomized complete block experiment.  108 varieties 3   reps.  Plots 6 meters long, 0.75 meters wide, trimmed 4.2   meters lengths harvest. Trimming done spraying wheat   herbicide.  sprayer travelled serpentine pattern   columns.  trial sown serpentine manner   planter seeds three rows time (Left, Middle, Right). Field width 15 columns * 6 m = 90 m Field length 22 plots * .75 m = 16.5 m Used permission Arthur Gilmour, turn permission   Gil Hollamby.","code":""},{"path":"/reference/gilmour.serpentine.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"Arthur R Gilmour Brian R Cullis Arunas P Verbyla, 1997.   Accounting natural extraneous variation analysis   field experiments.   Journal Agric Biol Env Statistics, 2, 269-293.","code":""},{"path":"/reference/gilmour.serpentine.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"N. W. Galwey. 2014.   Introduction Mixed Modelling: Beyond Regression Analysis   Variance.   Table 10.9","code":""},{"path":"/reference/gilmour.serpentine.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat yield in South Australia with serpentine row/col effects — gilmour.serpentine","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(gilmour.serpentine)   dat <- gilmour.serpentine    libs(desplot)   desplot(dat, yield~ col*row,           num=gen, show.key=FALSE, out1=rep,           aspect = 16.5/90, # true aspect           main=\"gilmour.serpentine\")     # Extreme field trend.  Blocking insufficient--needs a spline/smoother   # xyplot(yield~col, data=dat, main=\"gilmour.serpentine\")    if(require(\"asreml\", quietly=TRUE)) {        libs(asreml,lucid)          dat <- transform(dat, rowf=factor(row), colf=factor(10*(col-8)))     dat <- dat[order(dat$rowf, dat$colf), ] # Sort order needed by asreml          # RCB     m0 <- asreml(yield ~ gen, data=dat, random=~rep)          # Add AR1 x AR1     m1 <- asreml(yield ~ gen, data=dat,                  resid = ~ar1(rowf):ar1(colf))          # Add spline     m2 <- asreml(yield ~ gen + col, data=dat,                  random= ~ spl(col) + colf,                  resid = ~ar1(rowf):ar1(colf))        # Figure 4 shows serpentine spraying     p2 <- predict(m2, data=dat, classify=\"colf\")$pvals     plot(p2$predicted, type='b', xlab=\"column number\", ylab=\"BLUP\")        # Define column code (due to serpentine spraying)     # Rhelp doesn't like double-percent modulus symbol, so compute by hand     dat <- transform(dat, colcode = factor(dat$col-floor((dat$col-1)/4)*4 -1))          m3 <- asreml(yield ~ gen + lin(colf) + colcode, data=dat,                  random= ~ colf + rowf + spl(colf),                  resid = ~ar1(rowf):ar1(colf))        # Figure 6 shows serpentine row effects     p3 <- predict(m3, data=dat, classify=\"rowf\")$pvals     plot(p3$predicted, type='l', xlab=\"row number\", ylab=\"BLUP\")     text(1:22, p3$predicted, c('L','L','M','R','R','M','L','L',                                'M','R','R','M','L','L','M','R','R','M','L','L','M','R'))          # Define row code (due to serpentine planting). 1=middle, 2=left/right     dat <- transform(dat, rowcode = factor(row))     levels(dat$rowcode) <- c('2','2','1','2','2','1','2','2','1',                              '2','2','1','2','2','1','2','2','1','2','2','1','2')          m6 <- asreml(yield ~ gen + lin(colf) + colcode +rowcode, data=dat,                  random= ~ colf + rowf + spl(col),                  resid = ~ar1(rowf):ar1(colf))     plot(varioGram(m6), xlim=c(0:17), ylim=c(0,11), zlim=c(0,4000),          main=\"gilmour.serpentine\")   }    } # }"},{"path":"/reference/gilmour.slatehall.html","id":null,"dir":"Reference","previous_headings":"","what":"Slate Hall Farm 1978 — gilmour.slatehall","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"Yields trial Slate Hall Farm 1978.","code":""},{"path":"/reference/gilmour.slatehall.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"data frame 150 observations following 5 variables. row row col column yield yield (grams/plot) gen genotype factor, 25 levels rep rep factor, 6 levels","code":""},{"path":"/reference/gilmour.slatehall.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"trial spring wheat Slate Hall Farm 1978.    experiment balanced lattice 25 varieties 6 replicates.   'rep' labels arbitrary (rep labels appeared source   data).   row within rep incomplete block.   plot size 1.5 meters 4 meters. Field width: 10 plots x 4 m = 40 m Field length: 15 plots x 1.5 meters = 22.5 m","code":""},{"path":"/reference/gilmour.slatehall.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"Arthur R Gilmour Brian R Cullis Arunas P Verbyla (1997).   Accounting natural extraneous variation analysis   field experiments.   Journal Agricultural, Biological, Environmental     Statistics, 2, 269-293.   https://doi.org/10.2307/1400446","code":""},{"path":"/reference/gilmour.slatehall.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"None.","code":""},{"path":"/reference/gilmour.slatehall.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Slate Hall Farm 1978 — gilmour.slatehall","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(gilmour.slatehall)   dat <- gilmour.slatehall    libs(desplot)   desplot(dat, yield ~ col * row,           aspect=22.5/40, num=gen, out1=rep, cex=1,           main=\"gilmour.slatehall\")     if(require(\"asreml\", quietly=TRUE)) {      libs(asreml,lucid)      # Model 4 of Gilmour et al 1997     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf), ]     m4 <- asreml(yield ~ gen + lin(row), data=dat,                  random = ~ dev(row) + dev(col),                  resid = ~ ar1(xf):ar1(yf))     # coef(m4)$fixed[1] # linear row     # [1] 31.72252 # (sign switch due to row ordering)          lucid::vc(m4)     ##       effect component std.error z.ratio bound      ##     dev(col)  2519      1959         1.3     P   0     ##     dev(row) 20290     10260         2       P   0     ##     xf:yf(R) 23950      4616         5.2     P   0     ## xf:yf!xf!cor     0.439     0.113     3.9     U   0     ## xf:yf!yf!cor     0.125     0.117     1.1     U   0          plot(varioGram(m4), main=\"gilmour.slatehall\")   }    } # }"},{"path":"/reference/gomez.fractionalfactorial.html","id":null,"dir":"Reference","previous_headings":"","what":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"Fractional factorial rice, 1/2 2^6 = 2x2x2x2x2x2.   Two reps 2 blocks rep.","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"data frame 64 observations following 6 variables. yield grain yield tons/ha rep replicate, 2 levels block block within rep, 2 levels trt treatment, levels (1) abcdef col column position field row row position field treatment, 2 levels b b treatment, 2 levels c c treatment, 2 levels d d treatment, 2 levels e e treatment, 2 levels f f treatment, 2 levels","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"Grain yield 2^6 fractional factorial experiment blocks 16   plots , two replications. Gomez inconsistencies. One example: Page 171: treatment (1) rep 1, block 2 rep 2, block 1. Page 172: treatment (1) Rep 1, block 1 rep 2, block 1. data uses layout shown page 171. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 171-172.","code":""},{"path":"/reference/gomez.fractionalfactorial.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fractional factorial of rice, 1/2 2^6 = 2x2x2x2x2x2 — gomez.fractionalfactorial","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gomez.fractionalfactorial) dat <- gomez.fractionalfactorial  # trt abcdef has the highest yield # Gomez, Figure 4.8 libs(desplot) desplot(dat, yield~col*row,         # aspect unknown         text=trt, shorten=\"none\", show.key=FALSE, cex=1,         main=\"gomez.fractionalfactorial - treatment & yield\")     # Ensure factors   dat <- transform(dat,                    a=factor(a), b=factor(b), c=factor(c),                    d=factor(d), e=factor(e), f=factor(f) )    # Gomez table 4.24, trt SS totalled together. # Why didn't Gomez nest block within rep? m0 <- lm(yield ~ rep * block + trt, dat) anova(m0)  # Gomez table 4.24, trt SS split apart m1 <- lm(yield ~ rep * block + (a+b+c+d+e+f)^3, dat) anova(m1)  libs(FrF2) aliases(m1) MEPlot(m1, select=3:8,        main=\"gomez.fractionalfactorial - main effects plot\")  } # }"},{"path":"/reference/gomez.groupsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Group balanced split-plot design in rice — gomez.groupsplit","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"Group balanced split-plot design rice","code":""},{"path":"/reference/gomez.groupsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"data frame 270 observations following 7 variables. col column row row rep replicate factor, 3 levels fert fertilizer factor, 2 levels gen genotype factor, 45 levels group grouping (genotype) factor, 3 levels yield yield rice","code":""},{"path":"/reference/gomez.groupsplit.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"Genotype group S1 less 105 days growth duration, S2   105-115 days growth duration, S3 115 days. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.groupsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 120.","code":""},{"path":"/reference/gomez.groupsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Group balanced split-plot design in rice — gomez.groupsplit","text":"","code":"library(agridat) data(gomez.groupsplit) dat <- gomez.groupsplit  # Gomez figure 3.10.  Obvious fert and group effects libs(desplot) desplot(dat, group ~ col*row,         out1=rep, col=fert, text=gen, # aspect unknown         main=\"gomez.groupsplit\")   # Gomez table 3.19 (not partitioned by group) m1 <- aov(yield ~ fert*group + gen:group + fert:gen:group +             Error(rep/fert/group), data=dat) summary(m1) #>  #> Error: rep #>           Df Sum Sq Mean Sq F value Pr(>F) #> Residuals  2  4.917   2.458                #>  #> Error: rep:fert #>           Df Sum Sq Mean Sq F value Pr(>F)   #> fert       1  96.05   96.05    68.7 0.0142 * #> Residuals  2   2.80    1.40                  #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: rep:fert:group #>            Df Sum Sq Mean Sq F value Pr(>F)   #> group       2  4.259  2.1294   6.674 0.0197 * #> fert:group  2  0.628  0.3138   0.984 0.4150   #> Residuals   8  2.553  0.3191                  #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>                 Df Sum Sq Mean Sq F value   Pr(>F)     #> group:gen       42 20.494  0.4880   4.461 2.08e-12 *** #> fert:group:gen  42  4.093  0.0975   0.891    0.662     #> Residuals      168 18.378  0.1094                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1"},{"path":"/reference/gomez.heterogeneity.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"RCB experiment rice, heterogeneity regressions","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"","code":"data(\"gomez.heterogeneity\")"},{"path":"/reference/gomez.heterogeneity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"gen genotype yield yield kg/ha tillers tillers /hill","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"experiment 3 genotypes examine relationship yield   number tillers. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 377.","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"None.","code":""},{"path":"/reference/gomez.heterogeneity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, heterogeneity of regressions — gomez.heterogeneity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gomez.heterogeneity) dat <- gomez.heterogeneity    libs(lattice)   xyplot(yield ~ tillers, dat, groups=gen,          type=c(\"p\",\"r\"),          main=\"gomez.heterogeneity\") } # }"},{"path":"/reference/gomez.heteroskedastic.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"RCB experiment rice, heteroskedastic varieties","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"","code":"data(\"gomez.heteroskedastic\")"},{"path":"/reference/gomez.heteroskedastic.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"data frame 105 observations following 4 variables. gen genotype group group genotypes rep replicate yield yield","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"RCB design three reps.  Genotypes 1-15 hybrids, 16-32   parents, 33-35 checks. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 310.","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"None.","code":""},{"path":"/reference/gomez.heteroskedastic.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, heteroskedastic varieties — gomez.heteroskedastic","text":"","code":"library(agridat) data(gomez.heteroskedastic) dat <- gomez.heteroskedastic  # Fix the outlier as reported by Gomez p. 311 dat[dat$gen==\"G17\" & dat$rep==\"R2\",\"yield\"] <- 7.58  libs(lattice) bwplot(gen ~ yield, dat, group=as.numeric(dat$group),        ylab=\"genotype\", main=\"gomez.heterogeneous\")   # Match Gomez table 7.28 m1 <- lm(yield ~ rep + gen, data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: yield #>           Df Sum Sq Mean Sq F value    Pr(>F)     #> rep        2  3.306 1.65304  5.6164  0.005528 **  #> gen       34 40.020 1.17705  3.9992 5.806e-07 *** #> Residuals 68 20.014 0.29432                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: yield ##           Df Sum Sq Mean Sq F value    Pr(>F) ## rep        2  3.306 1.65304  5.6164  0.005528 ** ## gen       34 40.020 1.17705  3.9992 5.806e-07 *** ## Residuals 68 20.014 0.29432"},{"path":"/reference/gomez.multilocsplitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"Grain yield measured 3 locations 2 reps per location.   Within rep, main plot 6 nitrogen fertilizer treatments   sub plot 2 rice varieties.","code":""},{"path":"/reference/gomez.multilocsplitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"data frame 108 observations following 5 variables. loc location, 3 levels nitro nitrogen kg/ha rep replicate, 2 levels gen genotype, 2 levels yield yield, kg/ha Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.multilocsplitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 339.","code":""},{"path":"/reference/gomez.multilocsplitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rice, split-plot design — gomez.multilocsplitplot","text":"","code":"if (FALSE) { # \\dontrun{ library(agridat) data(gomez.multilocsplitplot) dat <- gomez.multilocsplitplot dat$nf <- factor(dat$nitro)  # Gomez figure 8.3 libs(lattice) xyplot(yield~nitro, dat, group=loc, type=c('p','smooth'), auto.key=TRUE,        main=\"gomez.multilocsplitplot\")  # AOV # Be careful to use the right stratum, 'nf' appears in both strata. # Still not quite the same as Gomez table 8.21 t1 <- terms(yield ~ loc * nf * gen + Error(loc:rep:nf),             \"Error\", keep.order=TRUE) m1 <- aov(t1, data=dat) summary(m1)    # F values are somewhat similar to Gomez Table 8.21   libs(lme4)   m2 <- lmer(yield ~ loc*nf*gen + (1|loc/rep/nf), dat)   anova(m2)   ## Analysis of Variance Table   ##            Df   Sum Sq  Mean Sq F value   ## loc         2   117942    58971  0.1525   ## nf          5 72841432 14568286 37.6777   ## gen         1  7557570  7557570 19.5460   ## loc:nf     10 10137188  1013719  2.6218   ## loc:gen     2  4270469  2135235  5.5223   ## nf:gen      5  1501767   300353  0.7768   ## loc:nf:gen 10  1502273   150227  0.3885  } # }"},{"path":"/reference/gomez.nitrogen.html","id":null,"dir":"Reference","previous_headings":"","what":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"Soil nitrogen three times eight fertilizer treatments","code":""},{"path":"/reference/gomez.nitrogen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"data frame 96 observations following 4 variables. trt nitrogen treatment factor nitro soil nitrogen content, percent rep replicate stage growth stage, three periods","code":""},{"path":"/reference/gomez.nitrogen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"Eight fertilizer treatments tested. Soil nitrogen content measured three times.  P1 = 15 days post   transplanting. P2 = 40 days post transplanting. P3 = panicle initiation. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nitrogen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 259.","code":""},{"path":"/reference/gomez.nitrogen.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"R-help mailing list, 9 May 2013.   Data provided Cyril Lundrigan.  Analysis method Rich Heiberger.","code":""},{"path":"/reference/gomez.nitrogen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soil nitrogen at three times for eight fertilizer treatments — gomez.nitrogen","text":"","code":"library(agridat)  data(gomez.nitrogen) dat <- gomez.nitrogen  # Note the depletion of nitrogen over time (stage) libs(HH) #> Loading required package: grid #> Loading required package: multcomp #> Loading required package: mvtnorm #> Loading required package: survival #> Loading required package: TH.data #> Loading required package: MASS #>  #> Attaching package: ‘TH.data’ #> The following object is masked from ‘package:MASS’: #>  #>     geyser #> Loading required package: gridExtra #>  #> Attaching package: ‘HH’ #> The following object is masked from ‘package:base’: #>  #>     is.R interaction2wt(nitro ~ rep/trt + trt*stage, data=dat,                x.between=0, y.between=0,                main=\"gomez.nitrogen\")   # Just the fertilizer profiles with(dat, interaction.plot(stage, trt, nitro,                            col=1:4, lty=1:3, main=\"gomez.nitrogen\",                            xlab=\"Soil nitrogen at three times for each treatment\"))  # Gomez table 6.16 m1 <- aov(nitro ~ Error(rep/trt) + trt*stage, data=dat) summary(m1) #>  #> Error: rep #>           Df Sum Sq Mean Sq F value Pr(>F) #> Residuals  3 0.8457  0.2819                #>  #> Error: rep:trt #>           Df Sum Sq Mean Sq F value  Pr(>F)    #> trt        7 1.2658 0.18083   4.935 0.00201 ** #> Residuals 21 0.7695 0.03664                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>           Df Sum Sq Mean Sq F value   Pr(>F)     #> stage      2  52.04  26.021 715.871  < 2e-16 *** #> trt:stage 14   3.57   0.255   7.008 1.53e-07 *** #> Residuals 48   1.74   0.036                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1  # Gomez table 6.18 # Treatment                    1 2 3 4 5 6 7 8 cont <- cbind(\"T7 vs others\" = c( 1, 1, 1, 1, 1, 1,-7, 1),               \"T8 vs others\"  = c( 1, 1, 1, 1, 1, 1, 0,-6),               \"T2,T5 vs others\"   = c(-1, 2,-1,-1, 2,-1, 0, 0),               \"T2 vs T5\"       = c( 0, 1, 0, 0,-1, 0, 0, 0)) contrasts(dat$trt) <- cont contrasts(dat$trt) #>    T7 vs others T8 vs others T2,T5 vs others T2 vs T5               #> T1            1            1              -1        0 -3.028130e-01 #> T2            1            1               2        1  8.326673e-17 #> T3            1            1              -1        0 -2.101031e-01 #> T4            1            1              -1        0 -3.487772e-01 #> T5            1            1               2       -1  2.775558e-17 #> T6            1            1              -1        0  8.616933e-01 #> T7           -7            0               0        0 -1.387779e-17 #> T8            1           -6               0        0  0.000000e+00 #>                                #> T1 -6.632738e-01 -4.673031e-01 #> T2  8.326673e-17  0.000000e+00 #> T3 -1.136421e-01  8.324315e-01 #> T4  7.387109e-01 -2.875078e-01 #> T5  8.326673e-17  0.000000e+00 #> T6  3.820501e-02 -7.762061e-02 #> T7  5.551115e-17  2.775558e-17 #> T8  5.551115e-17  5.551115e-17  m2 <- aov(nitro ~ Error(rep/trt) + trt*stage, data=dat) summary(m2, expand.split=FALSE,         split=list(trt=list(                      \"T7 vs others\"=1,                      \"T8 vs others\"=2,                      \"T2,T5 vs others\"=3,                      \"T2 vs T5\"=4,                      rest=c(5,6,7)),           \"trt:stage\"=list(             \"(T7 vs others):P\"=c(1,8),             \"(T8 vs others):P\"=c(2,9),             \"(T2,T5 vs others):P\"=c(3,10),             \"(T2 vs T5):P\"=c(4,11),             \"rest:P\"=c(5,6,7,12,13,14))           )) #>  #> Error: rep #>           Df Sum Sq Mean Sq F value Pr(>F) #> Residuals  3 0.8457  0.2819                #>  #> Error: rep:trt #>                        Df Sum Sq Mean Sq F value  Pr(>F)    #> trt                     7 1.2658  0.1808   4.935 0.00201 ** #>   trt: T7 vs others     1 0.3511  0.3511   9.581 0.00548 ** #>   trt: T8 vs others     1 0.0455  0.0455   1.242 0.27761    #>   trt: T2,T5 vs others  1 0.0228  0.0228   0.621 0.43952    #>   trt: T2 vs T5         1 0.1176  0.1176   3.209 0.08764 .  #>   trt: rest             3 0.7289  0.2430   6.630 0.00252 ** #> Residuals              21 0.7695  0.0366                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>                                  Df Sum Sq Mean Sq F value   Pr(>F)     #> stage                             2  52.04  26.021 715.871  < 2e-16 *** #> trt:stage                        14   3.57   0.255   7.008 1.53e-07 *** #>   trt:stage: (T7 vs others):P     2   2.14   1.068  29.391 4.63e-09 *** #>   trt:stage: (T8 vs others):P     2   0.54   0.268   7.373 0.001613 **  #>   trt:stage: (T2,T5 vs others):P  2   0.64   0.321   8.843 0.000538 *** #>   trt:stage: (T2 vs T5):P         2   0.02   0.011   0.298 0.743303     #>   trt:stage: rest:P               6   0.23   0.038   1.051 0.404967     #> Residuals                        48   1.74   0.036                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1"},{"path":"/reference/gomez.nonnormal1.html","id":null,"dir":"Reference","previous_headings":"","what":"Insecticide treatment effectiveness — gomez.nonnormal1","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"Insecticide treatment effectiveness","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"","code":"data(\"gomez.nonnormal1\")"},{"path":"/reference/gomez.nonnormal1.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"data frame 36 observations following 3 variables. trt insecticidal treatment rep replicate larvae number larvae","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"Nine treatments (including control, T9) used four   replicates.  number living insect larvae recorded. data show signs non-normality, log transform used Gomez. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 300.","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"None.","code":""},{"path":"/reference/gomez.nonnormal1.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Insecticide treatment effectiveness — gomez.nonnormal1","text":"","code":"library(agridat) data(gomez.nonnormal1) dat <- gomez.nonnormal1  # Gomez figure 7.3 ## libs(dplyr) ## dat2 <- dat %>% group_by(trt) ## dat2 <- summarize(dat2, mn=mean(larvae), rng=diff(range(larvae))) ## plot(rng ~ mn, data=dat2, ##      xlab=\"mean number of larvae\", ylab=\"range of number of larvae\", ##      main=\"gomez.nonnormal1\")   # Because some of the original values are less than 10, # the transform used is log10(x+1) instead of log10(x). dat <- transform(dat, tlarvae=log10(larvae+1))  # QQ plots for raw/transformed data libs(reshape2, lattice) qqmath( ~ value|variable, data=melt(dat),        main=\"gomez.nonnormal1 - raw/transformed QQ plot\",        scales=list(relation=\"free\")) #> Using trt, rep as id variables    # Gomez table 7.16 m1 <- lm(tlarvae ~ rep + trt, data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: tlarvae #>           Df Sum Sq Mean Sq F value    Pr(>F)     #> rep        3 0.9567 0.31889  3.6511 0.0267223 *   #> trt        8 3.9823 0.49779  5.6995 0.0004092 *** #> Residuals 24 2.0961 0.08734                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: tlarvae ##           Df Sum Sq Mean Sq F value    Pr(>F) ## rep        3 0.9567 0.31889  3.6511 0.0267223 * ## trt        8 3.9823 0.49779  5.6995 0.0004092 *** ## Residuals 24 2.0961 0.08734"},{"path":"/reference/gomez.nonnormal2.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"RCB experiment rice, measuring white heads","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"","code":"data(\"gomez.nonnormal2\")"},{"path":"/reference/gomez.nonnormal2.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"data frame 42 observations following 3 variables. gen genotype rep replicate white percentage white heads","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"data percent white heads rice variety trial   14 varieties 3 reps.  many values less   10, suggested data transformation sqrt(x+.5). Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 300.","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"None.","code":""},{"path":"/reference/gomez.nonnormal2.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, measuring white heads — gomez.nonnormal2","text":"","code":"library(agridat)  data(gomez.nonnormal2) dat <- gomez.nonnormal2  # Gomez suggested sqrt transform dat <- transform(dat, twhite = sqrt(white+.5))  # QQ plots for raw/transformed data libs(reshape2, lattice) qqmath( ~ value|variable, data=melt(dat),        main=\"gomez.nonnormal2 - raw/transformed QQ plot\",        scales=list(relation=\"free\")) #> Using gen, rep as id variables   # Gomez anova table 7.21 m1 <- lm(twhite ~ rep + gen, data=dat) anova(m1) #> Analysis of Variance Table #>  #> Response: twhite #>           Df Sum Sq Mean Sq F value    Pr(>F)     #> rep        2  2.401  1.2004  1.9137    0.1678     #> gen       13 48.011  3.6931  5.8877 6.366e-05 *** #> Residuals 26 16.309  0.6273                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: twhite2 ##           Df Sum Sq Mean Sq F value    Pr(>F) ## rep        2  2.401  1.2004  1.9137    0.1678 ## gen       13 48.011  3.6931  5.8877 6.366e-05 *** ## Residuals 26 16.309  0.6273"},{"path":"/reference/gomez.nonnormal3.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"RCB experiment rice, 12 varieties leafhopper survival","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"","code":"data(\"gomez.nonnormal3\")"},{"path":"/reference/gomez.nonnormal3.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"data frame 36 observations following 3 variables. gen genotype/variety rice rep replicate hoppers percentage surviving leafhoppers","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"rice variety, 75 leafhoppers caged percentage   surviving insects determined. Gomez suggest replacing 0 values 1/(4*75) replacing 100   1-1/(4*75) 75 number insects. effect, means, example, (1/4)th insect survived. data percents, Gomez suggested using arcsin   transformation. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 307.","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"None.","code":""},{"path":"/reference/gomez.nonnormal3.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, 12 varieties with leafhopper survival — gomez.nonnormal3","text":"","code":"library(agridat) data(gomez.nonnormal3) dat <- gomez.nonnormal3  # First, replace 0, 100 values dat$thoppers <- dat$hoppers dat <- transform(dat, thoppers=ifelse(thoppers==0, 1/(4*75), thoppers)) dat <- transform(dat, thoppers=ifelse(thoppers==100, 100-1/(4*75), thoppers)) # Arcsin transformation of percentage p converted to degrees # is arcsin(sqrt(p))/(pi/2)*90 dat <- transform(dat, thoppers=asin(sqrt(thoppers/100))/(pi/2)*90)  # QQ plots for raw/transformed data libs(reshape2, lattice) qqmath( ~ value|variable, data=melt(dat),        main=\"gomez.nonnormal3 - raw/transformed QQ plot\",        scales=list(relation=\"free\")) #> Using gen, rep as id variables   m1 <- lm(thoppers ~ gen, data=dat) anova(m1) # Match Gomez table 7.25 #> Analysis of Variance Table #>  #> Response: thoppers #>           Df  Sum Sq Mean Sq F value    Pr(>F)     #> gen       11 16838.7 1530.79  16.502 1.316e-08 *** #> Residuals 24  2226.4   92.77                       #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Response: thoppers ##           Df  Sum Sq Mean Sq F value    Pr(>F) ## gen       11 16838.7 1530.79  16.502 1.316e-08 *** ## Residuals 24  2226.4   92.77"},{"path":"/reference/gomez.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — gomez.rice.uniformity","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"Uniformity trial rice Philippines.","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"data frame 648 observations following 3 variables. row row col column yield grain yield, grams/m^2","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"area 20 meters 38 meters planted rice variety IR8.    harvest, 1-meter border removed around field discarded.   square meter (1 meter 1 meter) harvested weighed. Field width: 18 plots x 1 m = 18 m Field length: 38 plots x 1 m = 38 m Note Gomez published paper 1969 rice uniformity data   four trials conducted 1968 dry wet seasons. likely   data taken one four trials. Estimated   harvest year 1968.   \"Estimation optimum plot size rice uniformity data\".   https://www.cabidigitallibrary.org/doi/full/10.5555/19711601105 Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"Gomez, K.. Gomez, .. (1984).   Statistical Procedures Agricultural Research.   Wiley-Interscience. Page 481.","code":""},{"path":"/reference/gomez.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — gomez.rice.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gomez.rice.uniformity) dat <- gomez.rice.uniformity  libs(desplot) # Raw data plot desplot(dat, yield ~ col*row,         aspect=38/18, # true aspect         main=\"gomez.rice.uniformity\")  libs(desplot, reshape2) # 3x3 moving average.  Gomez figure 12.1 dmat <- melt(dat, id.var=c('col','row')) dmat <- acast(dmat, row~col) m0 <- dmat cx <- 2:17 rx <- 2:35 dmat3 <- (m0[rx+1,cx+1]+m0[rx+1,cx]+m0[rx+1,cx-1]+             m0[rx,cx+1]+m0[rx,cx]+m0[rx,cx-1]+             m0[rx-1,cx+1]+m0[rx-1,cx]+m0[rx-1,cx-1])/9 dat3 <- melt(dmat3) desplot(dat3, value~Var2*Var1,         aspect=38/18,         at=c(576,637,695,753,811,870,927),         main=\"gomez.rice.uniformity smoothed\")   libs(agricolae)  # Gomez table 12.4 tab <- index.smith(dmat,                    main=\"gomez.rice.uniformity\",                    col=\"red\")$uniformity tab <- data.frame(tab)    ## # Gomez figure 12.2 ## op <- par(mar=c(5,4,4,4)+.1) ## m1 <- nls(Vx ~ 9041/Size^b, data=tab, start=list(b=1)) ## plot(Vx ~ Size, tab, xlab=\"Plot size, m^2\") ## lines(fitted(m1) ~ tab$Size, col='red') ## axis(4, at=tab$Vx, labels=tab$CV) ## mtext(\"CV\", 4, line=2) ## par(op)  } # }"},{"path":"/reference/gomez.seedrate.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of rice, 6 densities — gomez.seedrate","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"RCB experiment rice, 6 densities","code":""},{"path":"/reference/gomez.seedrate.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"data frame 24 observations following 3 variables. rate kg seeds per hectare rep rep (block), four levels yield yield, kg/ha","code":""},{"path":"/reference/gomez.seedrate.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"Rice yield six different densities RCB design. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.seedrate.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"Gomez, K.. Gomez, .. 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 26.","code":""},{"path":"/reference/gomez.seedrate.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of rice, 6 densities — gomez.seedrate","text":"","code":"library(agridat) data(gomez.seedrate) dat <- gomez.seedrate  libs(lattice) xyplot(yield ~ rate, data=dat, group=rep, type='b',        main=\"gomez.seedrate\", auto.key=list(columns=4))   # Quadratic response.  Use raw polynomials so we can compute optimum m1 <- lm(yield ~ rep + poly(rate,2,raw=TRUE), dat) -coef(m1)[5]/(2*coef(m1)[6]) # Optimum is at 29 #> poly(rate, 2, raw = TRUE)1  #>                     29.148   # Plot the model predictions libs(latticeExtra) newdat <- expand.grid(rep=levels(dat$rep), rate=seq(25,150)) newdat$pred <- predict(m1, newdat) p1 <- aggregate(pred ~ rate, newdat, mean) # average reps   xyplot(yield ~ rate, data=dat, group=rep, type='b',          main=\"gomez.seedrate (with model predictions)\", auto.key=list(columns=4)) +     xyplot(pred ~ rate, p1, type='l', col='black', lwd=2)"},{"path":"/reference/gomez.splitplot.subsample.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"Split-plot experiment rice, subsamples","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"data frame 186 observations following 5 variables. time time factor, T1-T4 manage management, M1-M6 rep rep/block, R1-R3 sample subsample, S1-S2 height plant height (cm)","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"split-plot experiment three blocks.  Whole-plot 'management',   sub-plot 'time' application, two subsamples.  data   heights, measured two single-hill sampling units plot. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 481.","code":""},{"path":"/reference/gomez.splitplot.subsample.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of rice, with subsamples — gomez.splitplot.subsample","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gomez.splitplot.subsample) dat <- gomez.splitplot.subsample  libs(HH) interaction2wt(height ~ rep + time + manage, data=dat,                x.between=0, y.between=0,                main=\"gomez.splitplot.subsample - plant height\")   # Management totals, Gomez table 6.8 # tapply(dat$height, dat$manage, sum)  # Gomez table 6.11 analysis of variance m1 <- aov(height ~ rep + manage + time + manage:time +           Error(rep/manage/time), data=dat) summary(m1) ## Error: rep ##     Df Sum Sq Mean Sq ## rep  2   2632    1316  ## Error: rep:manage ##           Df Sum Sq Mean Sq F value Pr(>F) ## manage     7   1482  211.77   2.239 0.0944 . ## Residuals 14   1324   94.59 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: rep:manage:time ##             Df Sum Sq Mean Sq F value   Pr(>F) ## time         3  820.8  273.61   7.945 0.000211 *** ## manage:time 21  475.3   22.63   0.657 0.851793 ## Residuals   48 1653.1   34.44 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: Within ##           Df Sum Sq Mean Sq F value Pr(>F) ## Residuals 96  167.4   1.744  } # }"},{"path":"/reference/gomez.splitsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-split-plot experiment of rice — gomez.splitsplit","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"Grain yield three varieties rice grown split-split plot   arrangement 3 reps, nitrogen level main plot, management   practice sub-plot, rice variety sub-sub plot.","code":""},{"path":"/reference/gomez.splitsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"data frame 135 observations following 7 variables. rep block, 3 levels nitro nitrogen fertilizer, kilograms/hectare management plot management gen genotype/variety rice yield yield col column position field row row position field Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.splitsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 143.","code":""},{"path":"/reference/gomez.splitsplit.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"H. P. Piepho, R. N. Edmondson. (2018).   tutorial statistical analysis factorial experiments   qualitative quantitative treatment factor levels.   Jour Agronomy Crop Science, 8, 1-27.   https://doi.org/10.1111/jac.12267","code":""},{"path":"/reference/gomez.splitsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-split-plot experiment of rice — gomez.splitsplit","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(gomez.splitsplit) dat <- gomez.splitsplit dat$nf <- factor(dat$nitro)  libs(desplot) desplot(dat, nf ~ col*row,         # aspect unknown         out1=rep, col=management, num=gen, cex=1,         main=\"gomez.splitsplit\") desplot(dat, yield ~ col*row,         # aspect unknown         out1=rep, main=\"gomez.splitsplit\")   libs(HH) position(dat$nf) <- c(0,50,80,110,140) interaction2wt(yield~rep+nf+management+gen, data=dat,                main=\"gomez.splitsplit\",                x.between=0, y.between=0,                relation=list(x=\"free\", y=\"same\"),                rot=c(90,0), xlab=\"\",                par.strip.text.input=list(cex=.7))   # AOV.  Gomez page 144-153 m0 <- aov(yield~ nf * management * gen + Error(rep/nf/management),          data=dat) summary(m0) # Similar to Gomez, p. 153.  } # }"},{"path":"/reference/gomez.stripplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Strip-plot experiment of rice — gomez.stripplot","title":"Strip-plot experiment of rice — gomez.stripplot","text":"strip-plot experiment three reps, variety horizontal   strip nitrogen fertilizer vertical strip.","code":""},{"path":"/reference/gomez.stripplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Strip-plot experiment of rice — gomez.stripplot","text":"yield Grain yield kg/ha rep Rep nitro Nitrogen fertilizer kg/ha gen Rice variety col column row row","code":""},{"path":"/reference/gomez.stripplot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Strip-plot experiment of rice — gomez.stripplot","text":"Note, subset 'gomez.stripsplitplot' data. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.stripplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Strip-plot experiment of rice — gomez.stripplot","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 110.","code":""},{"path":"/reference/gomez.stripplot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Strip-plot experiment of rice — gomez.stripplot","text":"Jan Gertheiss (2014).   ANOVA Factors Ordered Levels.   J Agric Biological Environmental Stat, 19, 258-277.","code":""},{"path":"/reference/gomez.stripplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Strip-plot experiment of rice — gomez.stripplot","text":"","code":"library(agridat) data(gomez.stripplot) dat <- gomez.stripplot  # Gomez figure 3.7 libs(desplot) desplot(dat, gen ~ col*row,         # aspect unknown         out1=rep, out2=nitro, num=nitro, cex=1,         main=\"gomez.stripplot\")    # Gertheiss figure 1 # library(lattice) # dotplot(factor(nitro) ~ yield|gen, data=dat)  # Gomez table 3.12 # tapply(dat$yield, dat$rep, sum) # tapply(dat$yield, dat$gen, sum) # tapply(dat$yield, dat$nitro, sum)  # Gomez table 3.15.  Anova table for strip-plot dat <- transform(dat, nf=factor(nitro)) m1 <- aov(yield ~ gen * nf + Error(rep + rep:gen + rep:nf), data=dat) summary(m1) #>  #> Error: rep #>           Df  Sum Sq Mean Sq F value Pr(>F) #> Residuals  2 9220962 4610481                #>  #> Error: rep:gen #>           Df   Sum Sq  Mean Sq F value  Pr(>F)    #> gen        5 57100201 11420040   7.653 0.00337 ** #> Residuals 10 14922619  1492262                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: rep:nf #>           Df   Sum Sq  Mean Sq F value  Pr(>F)    #> nf         2 50676061 25338031   34.07 0.00307 ** #> Residuals  4  2974908   743727                    #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Error: Within #>           Df   Sum Sq Mean Sq F value   Pr(>F)     #> gen:nf    10 23877979 2387798   5.801 0.000427 *** #> Residuals 20  8232917  411646                      #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 ## Error: rep ##           Df  Sum Sq Mean Sq F value Pr(>F) ## Residuals  2 9220962 4610481  ## Error: rep:gen ##           Df   Sum Sq  Mean Sq F value  Pr(>F) ## gen        5 57100201 11420040   7.653 0.00337 ** ## Residuals 10 14922619  1492262 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: rep:nf ##           Df   Sum Sq  Mean Sq F value  Pr(>F) ## nf         2 50676061 25338031   34.07 0.00307 ** ## Residuals  4  2974908   743727 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## Error: Within ##           Df   Sum Sq Mean Sq F value   Pr(>F) ## gen:nf    10 23877979 2387798   5.801 0.000427 *** ## Residuals 20  8232917  411646   # More compact view ## libs(agricolae) ## with(dat, strip.plot(rep, nf, gen, yield))  ## Analysis of Variance Table ## Response: yield ##        Df   Sum Sq  Mean Sq F value    Pr(>F) ## rep     2  9220962  4610481 11.2001 0.0005453 *** ## nf      2 50676061 25338031 34.0690 0.0030746 ** ## Ea      4  2974908   743727  1.8067 0.1671590 ## gen     5 57100201 11420040  7.6528 0.0033722 ** ## Eb     10 14922619  1492262  3.6251 0.0068604 ** ## gen:nf 10 23877979  2387798  5.8006 0.0004271 *** ## Ec     20  8232917   411646   # Mixed-model version ## libs(lme4) ## m3 <- lmer(yield ~ gen * nf + (1|rep) + (1|rep:nf) + (1|rep:gen), data=dat) ## anova(m3)  ## Analysis of Variance Table ##        Df   Sum Sq  Mean Sq F value ## gen     5 15751300  3150260  7.6528 ## nf      2 28048730 14024365 34.0690 ## gen:nf 10 23877979  2387798  5.8006"},{"path":"/reference/gomez.stripsplitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Strip-split-plot experiment of rice — gomez.stripsplitplot","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"strip-split-plot experiment three reps, genotype horizontal   strip, nitrogen fertilizer vertical strip, planting method   subplot factor.","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"yield grain yield kg/ha planting planting factor, P1=broadcast, P2=transplanted rep rep, 3 levels nitro nitrogen fertilizer, kg/ha gen genotype, G1 G6 col column row row","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"Note, superset 'gomez.stripplot' data. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 155.","code":""},{"path":"/reference/gomez.stripsplitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Strip-split-plot experiment of rice — gomez.stripsplitplot","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gomez.stripsplitplot) dat <- gomez.stripsplitplot  # Layout libs(desplot) desplot(dat, gen ~ col*row,         out1=rep, col=nitro, text=planting, cex=1,         main=\"gomez.stripsplitplot\")   # Gomez table 4.19, ANOVA of strip-split-plot design dat <- transform(dat, nf=factor(nitro)) m1 <- aov(yield ~ nf * gen * planting +           Error(rep + rep:nf + rep:gen + rep:nf:gen), data=dat) summary(m1)  # There is a noticeable linear trend along the y coordinate which may be # an artifact that blocking will remove, or may need to be modeled. # Note the outside values in the high-nitro boxplot. libs(\"HH\") interaction2wt(yield ~ nitro + gen + planting + row, dat,                x.between=0, y.between=0,                x.relation=\"free\")  } # }"},{"path":"/reference/gomez.wetdry.html","id":null,"dir":"Reference","previous_headings":"","what":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Rice yield wet & dry seasons nitrogen fertilizer treatments","code":""},{"path":"/reference/gomez.wetdry.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"data frame 96 observations following 4 variables. season season = wet/dry nitrogen nitrogen fertilizer kg/ha rep replicate yield grain yield, t/ha","code":""},{"path":"/reference/gomez.wetdry.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Five nitrogen fertilizer treatments tested 2 seasons using 3 reps. Used permission Kwanchai Gomez.","code":""},{"path":"/reference/gomez.wetdry.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Gomez, K.. Gomez, ... 1984,   Statistical Procedures Agricultural Research.   Wiley-Interscience.   Page 318.","code":""},{"path":"/reference/gomez.wetdry.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"Rong-Cai Yang, Patricia Juskiw. (2011).   Analysis covariance agronomy crop research.   Canadian Journal Plant Science, 91:621-641.   https://doi.org/10.4141/cjps2010-032","code":""},{"path":"/reference/gomez.wetdry.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Rice yield in wet & dry seasons with nitrogen fertilizer treatments — gomez.wetdry","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gomez.wetdry) dat <- gomez.wetdry  libs(lattice) foo1 <- xyplot(yield ~ nitrogen|season, data=dat,                 group=rep,type='l',auto.key=list(columns=3),                ylab=\"yield in each season\",                main=\"gomez.wetdry raw data & model\")  # Yang & Juskiw fit a quadratic model with linear and quadratic # contrasts using non-equal intervals of nitrogen levels. # This example below omits the tedious contrasts  libs(latticeExtra, lme4) m1 <-lmer(yield ~ season*poly(nitrogen, 2) + (1|season:rep), data=dat) pdat <- expand.grid(season=c('dry','wet'),                     nitrogen=seq(from=0,to=150,by=5)) pdat$pred <- predict(m1, newdata=pdat, re.form= ~ 0) foo1 +    xyplot(pred ~ nitrogen|season, data=pdat, type='l',lwd=2,col=\"black\")   # m2 <-lmer(yield ~ poly(nitrogen, 2) + (1|season:rep), data=dat) # anova(m1,m2) ## m2: yield ~ poly(nitrogen, 2) + (1 | season:rep) ## m1: yield ~ season * poly(nitrogen, 2) + (1 | season:rep) ##    Df    AIC    BIC  logLik deviance  Chisq Chi Df Pr(>Chisq)     ## m2  5 86.418 93.424 -38.209   76.418                              ## m1  8 64.216 75.425 -24.108   48.216 28.202      3  3.295e-06 ***  } # }"},{"path":"/reference/gotway.hessianfly.html","id":null,"dir":"Reference","previous_headings":"","what":"Hessian fly damage to wheat varieties — gotway.hessianfly","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"Hessian fly damage wheat varieties","code":""},{"path":"/reference/gotway.hessianfly.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"block block factor, 4 levels genotype factor, 16 wheat varieties  lat latitude, numeric long longitude, numeric y number damaged plants n number total plants","code":""},{"path":"/reference/gotway.hessianfly.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"response binomial. plot square.","code":""},{"path":"/reference/gotway.hessianfly.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"C. . Gotway W. W. Stroup.   Generalized Linear Model Approach Spatial Data Analysis Prediction   Journal Agricultural, Biological, Environmental     Statistics, 2, 157-178. https://doi.org/10.2307/1400401","code":""},{"path":"/reference/gotway.hessianfly.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"GLIMMIX procedure. https://www.ats.ucla.edu/stat/SAS/glimmix.pdf","code":""},{"path":"/reference/gotway.hessianfly.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Hessian fly damage to wheat varieties — gotway.hessianfly","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(gotway.hessianfly)   dat <- gotway.hessianfly      dat$prop <- dat$y / dat$n      libs(desplot)   desplot(dat, prop~long*lat,           aspect=1, # true aspect           out1=block, num=gen, cex=.75,           main=\"gotway.hessianfly\")       # ----------------------------------------------------------------------------    # spaMM package example   libs(spaMM)   m1 = HLCor(cbind(y, n-y) ~ 1 + gen + (1|block) + Matern(1|long+lat),              data=dat, family=binomial(), ranPars=list(nu=0.5, rho=1/.7))   summary(m1)   fixef(m1)   # The following line fails with \"Invalid graphics state\"   # when trying to use pkgdown::build_site   # filled.mapMM(m1)    # ----------------------------------------------------------------------------    # Block random.  See Glimmix manual, output 1.18.   # Note: (Different parameterization)      libs(lme4)   l2 <- glmer(cbind(y, n-y) ~ gen + (1|block), data=dat, family=binomial,     control=glmerControl(check.nlev.gtr.1=\"ignore\"))   coef(l2)  } # }"},{"path":"/reference/goulden.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — goulden.barley.uniformity","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"Uniformity trial barley Canada","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"data frame 400 observations following 3 variables. row row col column yield yield, grams per plot","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"Yield (grams) 2304 square-yard plots barley grown field   48 yards side Dominion Rust Research Laboratory (Manitoba,   Canada) 1931. field sown half density one direction,   half-density perpendicular direction. letter Goulden Cochran, Goulden said: intended   use yields study effect systematic arrangements   also measure bias semi-Latin squares...correlation   adjacent pairs plots high (0.5) difficult   demonstrate bias satisfactory manner. Note: data Goulden (1939) subset 20 rows columns   one corner field full dataset. Field width: 48 plots x 3 feet = 144 feet Field length: 48 plots x 3 feet = 144 feet data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"C. H. Goulden, (1939).   Methods statistical analysis, 1st ed. Page 18.   https://archive.org/stream/methodsofstatist031744mbp   Note: version 20 plots x 20 plots. Leonard, Warren Andrew Clark (1939).   Field Plot Technique. Page 39.   https://archive.org/stream/fieldplottechniq00leon   Note: version 20 plots x 20 plots.","code":""},{"path":"/reference/goulden.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — goulden.barley.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(goulden.barley.uniformity) dat <- goulden.barley.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         aspect=48/48, # true aspect         main=\"goulden.barley.uniformity\")  # Left skewed distribution. See LeClerg, Leonard, Clark hist(dat$yield, main=\"goulden.barley.uniformity\",      breaks=c(21,40,59,78,97,116,135,154,173,192,211,230,249,268,287)+.5)  } # }"},{"path":"/reference/goulden.eggs.html","id":null,"dir":"Reference","previous_headings":"","what":"Sample of egg weights on 24 consecutive days — goulden.eggs","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"Sample egg weights 24 consecutive days","code":""},{"path":"/reference/goulden.eggs.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"","code":"data(\"goulden.eggs\")"},{"path":"/reference/goulden.eggs.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"data frame 240 observations following 2 variables. day day weight weight","code":""},{"path":"/reference/goulden.eggs.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"Data weights 10 eggs taken random day 24   days.  Day 1 Dec 10, Day 24 Jan 2. control chart standard deviations shows 4 values beyond   upper limits. data reveals single, unusually large egg   days.  almost surely double-yolk eggs.","code":""},{"path":"/reference/goulden.eggs.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"Cyrus H. Goulden (1952).   Methods Statistical Analysis, 2nd ed. Page 425.","code":""},{"path":"/reference/goulden.eggs.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"None.","code":""},{"path":"/reference/goulden.eggs.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Sample of egg weights on 24 consecutive days — goulden.eggs","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(goulden.eggs) dat <- goulden.eggs  libs(qicharts) # Figure 19-4 of Goulden. (Goulden uses 1/n when calculating std dev) op <- par(mfrow=c(2,1)) qic(weight, x = day, data = dat, chart = 'xbar',     main = 'goulden.eggs - Xbar chart',     xlab = 'Date', ylab = 'Avg egg weight' ) qic(weight, x = day, data = dat, chart = 's',     main = 'goulden.eggs - S chart',     xlab = 'Date', ylab = 'Std dev egg weight' ) par(op)  } # }"},{"path":"/reference/goulden.latin.html","id":null,"dir":"Reference","previous_headings":"","what":"Latin square experiment for testing fungicide — goulden.latin","title":"Latin square experiment for testing fungicide — goulden.latin","text":"Latin square experiment testing fungicide","code":""},{"path":"/reference/goulden.latin.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Latin square experiment for testing fungicide — goulden.latin","text":"","code":"data(\"goulden.latin\")"},{"path":"/reference/goulden.latin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Latin square experiment for testing fungicide — goulden.latin","text":"data frame 25 observations following 4 variables. trt treatment factor, 5 levels yield yield row row col column","code":""},{"path":"/reference/goulden.latin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Latin square experiment for testing fungicide — goulden.latin","text":"Five treatments tested control stem rust wheat.  Treatment   codes descriptions:    =  Dusted rains.   B  =  Dusted rains.   C  =  Dusted week.   D  =  Drifting,  week.   E  =  dusted.","code":""},{"path":"/reference/goulden.latin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Latin square experiment for testing fungicide — goulden.latin","text":"Cyrus H. Goulden (1952).   Methods Statistical Analysis, 2nd ed. Page 216.","code":""},{"path":"/reference/goulden.latin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Latin square experiment for testing fungicide — goulden.latin","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) library(agridat) data(goulden.latin) dat <- goulden.latin   libs(desplot) desplot(dat, yield ~ col*row,         text=trt, cex=1, # aspect unknown         main=\"goulden.latin\")   # Matches Goulden. m1 <- lm(yield~ trt + factor(row) + factor(col), data=dat) anova(m1)  } # }"},{"path":"/reference/goulden.splitsplit.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-split-plot experiment of wheat — goulden.splitsplit","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"Split-split-plot experiment wheat","code":""},{"path":"/reference/goulden.splitsplit.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"","code":"data(\"goulden.splitsplit\")"},{"path":"/reference/goulden.splitsplit.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"data frame 160 observations following 9 variables. row row col column yield yield inoc inoculate trt treatment number gen genotype dry dry/wet dust application dust dust treatment block block","code":""},{"path":"/reference/goulden.splitsplit.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"interesting split-split plot experiment sub-plot   treatments 2*5 factorial structure. experiment conducted 1932 experimental field   Dominion Rust Research Laboratory.  study designed   determine effect incidence root rot, variety   wheat, kinds dust seed treatment, method application   dust, efficacy soil inoculation root-rot organism. field 4 blocks. block 2 whole plots genotypes. whole-plot 10 sub-plots 5 different kinds dust   2 methods application. sub-plot 2 sub-sub-plots, one inoculated soil   one uninoculated soil.","code":""},{"path":"/reference/goulden.splitsplit.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"C. H. Goulden, (1939).   Methods statistical analysis, 1st ed. Page 18.   https://archive.org/stream/methodsofstatist031744mbp","code":""},{"path":"/reference/goulden.splitsplit.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"None","code":""},{"path":"/reference/goulden.splitsplit.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-split-plot experiment of wheat — goulden.splitsplit","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(goulden.splitsplit) dat <- goulden.splitsplit  libs(desplot)  ## Experiment design. Goulden p. 152-153 ## desplot(gen ~ col*row, data=dat, ##         out1=block, out2=trt, text=dust, col=inoc, cex=1, ##         main=\"goulden.splitsplit\")  desplot(dat, yield ~ col*row,          out1=block, out2=gen,         col=inoc, num=trt, cex=1,         main=\"goulden.splitsplit\")   # Match Goulden table 40 m1 <- aov(yield ~ gen           + dust + dry + dust:dry + gen:dust + gen:dry + gen:dust:dry           + inoc + inoc:gen + inoc:dust + inoc:dry           + inoc:dust:dry +inoc:gen:dust + inoc:gen:dry           + Error(block/(gen+gen:dust:dry+gen:inoc:dry)), data=dat) summary(m1)  } # }"},{"path":"/reference/graybill.heteroskedastic.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"Wheat varieties heteroskedastic yields","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"data frame 52 observations following 3 variables. env environment, 13 levels gen genotype, 4 levels yield yield","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"Yield 4 varieties wheat 13 locations Oklahoma, USA. data used explore variability varieties.","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"F. . Graybill, 1954.   Variance heterogeneity randomized block design,   Biometrics, 10, 516-520.","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"Hans-Pieter Piepho, 1994.   Missing observations analysis stability.   Heredity, 72, 141–145.   https://doi.org/10.1038/hdy.1994.20","code":""},{"path":"/reference/graybill.heteroskedastic.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat varieties with heteroskedastic yields — graybill.heteroskedastic","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(graybill.heteroskedastic) dat <- graybill.heteroskedastic  # Genotypes are obviously not homoscedastic boxplot(yield ~ gen, dat, main=\"graybill.heteroskedastic\")  # Shukla stability variance of each genotype, same as Grubbs' estimate # Matches Piepho 1994 page 143. # Do not do this!  Nowadays, use mixed models instead. libs(\"reshape2\") datm <- acast(dat, gen~env) w <- datm w <- sweep(w, 1, rowMeans(datm)) w <- sweep(w, 2, colMeans(datm)) w <- w + mean(datm) w <- rowSums(w^2) k=4; n=13 sig2 <- k*w/((k-2)*(n-1)) - sum(w)/((k-1)*(k-2)*(n-1)) ## sig2 ##     G1     G2     G3     G4 ## 145.98 -14.14  75.15  18.25  var.shukla <- function(x,N){   # Estimate variance of shukla stability statistics   # Piepho 1994 equation (5)   K <- length(x) # num genotypes   S <- outer(x,x)   S1 <- diag(S)   S2 <- rowSums(S) - S1   S[!upper.tri(S)] <- 0 # Make S upper triangular   # The ith element of S3 is the sum of the upper triangular elements of S,   # excluding the ith row and ith column   S3 <- sum(S) - rowSums(S) - colSums(S)   var.si2 <- 2*S1/(N-1) + 4/( (N-1)*(K-1)^2 ) * ( S2 + S3/(K-2)^2 )   return(var.si2) }  # Set negative estimates to zero sig2[sig2<0] <- 0  # Variance of shukla stat. Match Piepho 1994, table 5, example 1 var.shukla(sig2,13) ##        G1        G2        G3        G4  ## 4069.3296  138.9424 1423.0797  306.5270   } # }"},{"path":"/reference/gregory.cotton.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of cotton in Sudan. — gregory.cotton","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Factorial experiment cotton Sudan.","code":""},{"path":"/reference/gregory.cotton.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"","code":"data(\"gregory.cotton\")"},{"path":"/reference/gregory.cotton.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"data frame 144 observations following 6 variables. yield yield year year nitrogen nitrogen level date sowing date water irrigation amount spacing spacing plants","code":""},{"path":"/reference/gregory.cotton.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Experiment conducted Sudan Gezira Research Farm 1929-1930   1930-1931.  effects yield four factors studied   possible combinations. Sowing dates 1929: D1 = Jul 24, D2 = Aug 11, D3 = Sep 2, D4 = Sep 25. Spacing: S1 = 25 cm holes, S2 = 50 cm, S3 = 75 cm. usual   spacing 50-70 cm. Irrigation: I1 = Light, I2 = Medium, I3 = Heavy. Nitrogen: N0 = None/Control, N1 = 600 rotls/feddan. year 4*3*2*2=72 treatments, replicated four   times. means given . Gregory (1932) two interesting graphics:   1. radial bar plot   2. photographs 3D model treatment means.","code":""},{"path":"/reference/gregory.cotton.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Gregory, FG Crowther, F Lambert, AR (1932).   interrelation factors controlling production cotton   irrigation Sudan.   Journal Agricultural Science, 22, 617-638. Table 1, 10.   https://doi.org/10.1017/S0021859600054137","code":""},{"path":"/reference/gregory.cotton.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"Paterson, D. Statistical Technique Agricultural Research, p. 211.","code":""},{"path":"/reference/gregory.cotton.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of cotton in Sudan. — gregory.cotton","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gregory.cotton) dat <- gregory.cotton  # Main effect means, Gregory table 2 ## libs(dplyr) ## dat  ## dat  ## dat  ## dat    # Figure 2 of Gregory. Not recommended, but an interesting exercise. # https://stackoverflow.com/questions/13887365 if(FALSE){   libs(ggplot2)   d1 <- subset(dat, year==\"Y1\")   d1 <- transform(d1, grp=factor(paste(date,nitrogen,water,spacing)))   d1 <- d1[order(d1$grp),] # for angles   # Rotate labels on the left half 180 deg. First 18, last 18 labels   d1$ang <- 90+seq(from=(360/nrow(d1))/1.5, to=(1.5*(360/nrow(d1)))-360,                    length.out=nrow(d1))+80   d1$ang[1:18] <- d1$ang[1:18] + 180   d1$ang[55:72] <- d1$ang[55:72] + 180   # Lables on left half to right-adjusted   d1$hjust <- 0   d1$hjust[1:18] <- d1$hjust[55:72] <- 1      gg <- ggplot(d1, aes(x=grp,y=yield,fill=factor(spacing))) +     geom_col() +     guides(fill=FALSE) + # no legend for 'spacing'     coord_polar(start=-pi/2) + # default is to start at top     labs(title=\"gregory.cotton 1929\",x=\"\",y=\"\",label=\"\") +     # The bar columns are centered on 1:72, subtract 0.5 to add radial axes     geom_vline(xintercept = seq(1, 72, by=3)-0.5, color=\"gray\", size=.25) +     geom_vline(xintercept = seq(1, 72, by=18)-0.5, size=1) +     geom_vline(xintercept = seq(1, 72, by=9)-0.5, size=.5) +     geom_hline(yintercept=c(1,2,3)) +      geom_text(data=d1, aes(x=grp, y=max(yield), label=grp, angle=ang, hjust=hjust),               size=2) +     theme(panel.background=element_blank(),           axis.title=element_blank(),           panel.grid=element_blank(),           axis.text.x=element_blank(),           axis.text.y=element_blank(),           axis.ticks=element_blank() )   print(gg)    } } # }"},{"path":"/reference/grover.diallel.html","id":null,"dir":"Reference","previous_headings":"","what":"Diallel 6x6 — grover.diallel","title":"Diallel 6x6 — grover.diallel","text":"Diallel 6x6 4 blocks.","code":""},{"path":"/reference/grover.diallel.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Diallel 6x6 — grover.diallel","text":"","code":"data(\"grover.diallel\")"},{"path":"/reference/grover.diallel.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diallel 6x6 — grover.diallel","text":"data frame 144 observations following 5 variables. yield yield value rep character vector parent1 character vector parent2 character vector cross character vector","code":""},{"path":"/reference/grover.diallel.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diallel 6x6 — grover.diallel","text":"Yield 6x6 diallel 4 reps. Note: mean 2x2 cross slightly different Grover   p. 252. appears unknown error one 4 reps   data page 250.","code":""},{"path":"/reference/grover.diallel.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diallel 6x6 — grover.diallel","text":"Grover, Deepak & Lajpat Rai (2010).   Experimental Designing Data Analysis Agriculture Biology.   Agrotech Publishing Academy. Page 85.   https://archive.org/details/expldesnanddatanalinagblg00023","code":""},{"path":"/reference/grover.diallel.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Diallel 6x6 — grover.diallel","text":"None","code":""},{"path":"/reference/grover.diallel.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diallel 6x6 — grover.diallel","text":"","code":"if (FALSE) { # \\dontrun{   data(grover.diallel)   dat <- grover.diallel    anova(aov(yield ~ rep + cross, data=dat))    # These effects match the GCA and SCA values in Grover table 3, page 253.      libs(lmDiallel)   m2 <- lm.diallel(yield ~ parent1 + parent2, Block=rep,                    data=dat, fct=\"GRIFFING1\")   library(multcomp)   summary( glht(linfct=diallel.eff(m2), test=adjusted(type=\"none\")) )   ## Linear Hypotheses:   ##                Estimate Std. Error t value Pr(>|t|)       ## Intercept == 0  93.0774     0.9050 102.851    <0.01 ***   ## g_P1 == 0        1.4851     1.4309   1.038   1.0000       ## g_P2 == 0       -0.9911     1.4309  -0.693   1.0000       ## g_P3 == 0        2.2631     1.4309   1.582   0.9748       ## g_P4 == 0        5.4247     1.4309   3.791   0.0302 *     ## g_P5 == 0       -4.2490     1.4309  -2.969   0.1972       ## g_P6 == 0       -3.9328     1.4309  -2.748   0.3008       ## ts_P1:P1 == 0  -10.4026     4.5249  -2.299   0.6014       ## ts_P1:P2 == 0   -9.7214     3.2629  -2.979   0.1933       ## ts_P1:P3 == 0   -0.4581     3.2629  -0.140   1.0000       ## ts_P1:P4 == 0   17.0428     3.2629   5.223    <0.01 ***   ## ts_P1:P5 == 0   25.4765     3.2629   7.808    <0.01 ***   ## ts_P1:P6 == 0  -21.9372     3.2629  -6.723    <0.01 ***   ## ts_P2:P1 == 0   -9.7214     3.2629  -2.979   0.1928       ## ts_P2:P2 == 0    7.0899     4.5249   1.567   0.9773      } # }"},{"path":"/reference/grover.rcb.subsample.html","id":null,"dir":"Reference","previous_headings":"","what":"Rice RCB with subsamples — grover.rcb.subsample","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"experiment rice 9 fertilizer treatments 4 blocks,   4 hills per plot.","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"","code":"data(\"grover.rcb.subsample\")"},{"path":"/reference/grover.rcb.subsample.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"data frame 144 observations following 4 variables. tiller number tillers trt treatment factor block block factor unit subsample unit","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"experiment rice 9 fertilizer treatments 4 blocks,   4 hills per plot. response variable tiller count (per hill).   hills sampling units.","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"Grover, Deepak & Lajpat Rai (2010).   Experimental Designing Data Analysis Agriculture Biology.   Agrotech Publishing Academy. Page 85.   https://archive.org/details/expldesnanddatanalinagblg00023","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"None.","code":""},{"path":"/reference/grover.rcb.subsample.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Rice RCB with subsamples — grover.rcb.subsample","text":"","code":"if (FALSE) { # \\dontrun{   data(grover.rcb.subsample)   # Fixed-effects ANOVA. Matches Grover page 86.   anova(aov(tiller ~ block + trt + block:trt, data=grover.rcb.subsample))   ## Response: tiller   ##            Df Sum Sq Mean Sq F value  Pr(>F)       ## block       3    930  310.01  3.6918 0.01415 *     ## trt         8  11816 1477.00 17.5891 < 2e-16 ***   ## block:trt  24   4721  196.71  2.3425 0.00158 **    ## Residuals 108   9069   83.97                     } # }"},{"path":"/reference/gumpertz.pepper.html","id":null,"dir":"Reference","previous_headings":"","what":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"Phytophtera disease incidence pepper field","code":""},{"path":"/reference/gumpertz.pepper.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"data frame 800 observations following 6 variables. field field factor, 2 levels row x ordinate quadrat y ordinate disease presence (Y) absence (N) disease water soil moisture percent leaf leaf assay count","code":""},{"path":"/reference/gumpertz.pepper.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"field 20 rows 20 quadrates, 2 3 bell pepper plants   per plot.  plant wilted, dead, lesions,   Phytophthora disease considered present plot.    soil pathogen load assayed number leaf disks colonized   five.  field 2, pattern disease presence appears   follow soil water content.  field 1, obvious trends   present. Gumpertz et al. model presence disease  using soil moisture   leaf assay covariates, using disease presence neighboring   plots covariates autologistic model. Used permission Marcia Gumpertz.  Research funded USDA.","code":""},{"path":"/reference/gumpertz.pepper.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"Marcia L. Gumpertz; Jonathan M. Graham; Jean B. Ristaino (1997).   Autologistic Model Spatial Pattern Phytophthora Epidemic   Bell Pepper: Effects Soil Variables Disease Presence.   Journal Agricultural, Biological, Environmental     Statistics, Vol. 2, . 2., pp. 131-156.","code":""},{"path":"/reference/gumpertz.pepper.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Phytophtera disease incidence in a pepper field — gumpertz.pepper","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(gumpertz.pepper) dat <- gumpertz.pepper  # Gumpertz deletes two outliers dat[ dat$field ==\"F1\" & dat$row==20 & dat$quadrat==10, 'water'] <- NA dat[ dat$field ==\"F2\" & dat$row==5 & dat$quadrat==4, 'water'] <- NA  # Horizontal flip dat <- transform(dat, row=21-row)  # Disease presence.  Gumpertz fig 1a, 2a. libs(desplot) grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\")) desplot(dat, disease ~ row*quadrat|field,         col.regions=c('white','black'), aspect=1, # uncertain aspect         main=\"gumpertz.pepper disease presence\", )  # Soil water.  Gumpertz fig 1b, 2b desplot(dat, water ~ row*quadrat|field,         col.regions=grays(5), aspect=1, # uncertain aspect         at=c(5,7.5,10,12.5,15,18),         main=\"gumpertz.pepper soil moisture\")  # Leaf assay.  Gumpertz fig 1c, 2c desplot(dat, leaf ~ row*quadrat|field,         col.regions=grays(6),         at=c(0,1,2,3,4,5,6)-.5, aspect=1, # uncertain aspect         main=\"gumpertz.pepper leaf assay\", )   # Use the inner 16x16 grid of plots in field 2 dat2 <- droplevels(subset(dat, field==\"F2\" & !is.na(water) &                           row > 2 & row < 19 & quadrat > 2 & quadrat < 19))  m21 <- glm(disease ~ water + leaf, data=dat2, family=binomial) coef(m21) # These match Gumpertz et al table 4, model 1 ## (Intercept)       water        leaf ##  -9.1019623   0.7059993   0.4603931 dat2$res21 <- resid(m21) if(0){   libs(desplot)   desplot(dat2, res21 ~ row*quadrat,           main=\"gumpertz.pepper field 2, model 1 residuals\")   # Still shows obvious trends.  Gumpertz et al add spatial covariates for   # neighboring plots, but with only minor improvement in misclassification }  } # }"},{"path":"/reference/hadasch.lettuce.html","id":null,"dir":"Reference","previous_headings":"","what":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"Lettuce resistance downy mildew resistance (marker data).","code":""},{"path":"/reference/hadasch.lettuce.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"","code":"data(\"hadasch.lettuce\")"},{"path":"/reference/hadasch.lettuce.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"data frame 703 observations following 4 variables. loc locations gen genotype rep replicate dmr downy mildew resistance","code":""},{"path":"/reference/hadasch.lettuce.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"biparental cross 95 recombinant inbred lines \"Salinas 88\" (susceptible) \"La Brillante\" (highly resistant downy mildew). 89 RILs evaluated field experiments performed 2010 2011 near Salinas, California. loc 2 3 rep RCB design. approximately 30 plants per plot. Plots scored 0 (disease) 5 (severe disease). authors used following model first-stage analysis compute adjusted means genotype: y = loc + gen + gen:loc + block:loc + error gen fixed terms random.  adjusted means used response second stage: mn = 1 + Zu + error Z design matrix marker effects. error term fixed covariance matrix R first stage. Genotyping performed 95 SNPs 205 amplified fragment length polymporphism markers marker matrix M (89×300) provided. biallelic marker M(iw) ith genotype wth marker alleles A1 (.e. reference allele) A2 coded 1 A1,A1, -1 A2,A2 0 A1,A2 A2,A2. electronic version lettuce data licensed CC-4 downloaded 20 Feb 2021. https://figshare.com/articles/dataset/Lettuce_trial_phenotypic_and_marker_data_/8299493","code":""},{"path":"/reference/hadasch.lettuce.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"Hadasch, S., . Simko, R. J. Hayes, J. O. Ogutu, H.P. Piepho (2016).   Comparing predictive abilities phenotypic   marker-assisted selection methods biparental lettuce population.   Plant Genome 9.   https://doi.org/10.3835/plantgenome2015.03.0014","code":""},{"path":"/reference/hadasch.lettuce.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"Hayes, R. J., Galeano, C. H., Luo, Y., Antonise, R., & Simko, . (2014).   Inheritance Decay Fresh-cut Lettuce Recombinant Inbred Line Population \"Salinas 88\" × \"La Brillante\".   J. Amer. Soc. Hort. Sci., 139(4), 388-398.   https://doi.org/10.21273/JASHS.139.4.388","code":""},{"path":"/reference/hadasch.lettuce.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Lettuce resistance to downy mildew resistance (with marker data) — hadasch.lettuce","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(hadasch.lettuce)   data(hadasch.lettuce.markers)   dat <- hadasch.lettuce   datm <- hadasch.lettuce.markers      libs(agridat)   # loc 1 has 2 reps, loc 3 has higher dmr   dotplot(dmr ~ factor(gen)|factor(loc), dat,         group=rep, layout=c(1,3),         main=\"hadasch.lettuce\")    # kinship matrix   # head( tcrossprod(as.matrix(datm[,-1])) )    if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     dat <- transform(dat, loc=factor(loc), gen=factor(gen), rep=factor(rep))     m1 <- asreml(dmr ~ 1 + gen, data=dat,                  random = ~ loc + gen:loc + rep:loc)     p1 <- predict(m1, classify=\"gen\")$pvals   }      libs(sommer)   m2 <- mmer(dmr ~ 0 + gen, data=dat,              random = ~ loc + gen:loc + rep:loc)   p2 <- coef(m2)   head(p1)   head(p2)  } # }"},{"path":"/reference/hanks.sprinkler.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"Three wheat varieties planted 3 blocks, line sprinkler   crossing whole plots.","code":""},{"path":"/reference/hanks.sprinkler.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"data frame 108 observations following 7 variables. block block row row subplot column gen genotype, 3 levels yield yield (tons/ha) irr irrigation level, 1..6 dir direction sprinkler, N/S","code":""},{"path":"/reference/hanks.sprinkler.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"line-source sprinkler placed middle experiment   (subplots 6 7).  Subplots closest sprinkler receive   irrigation.  Subplots far sprinkler (near edges)   lowest yields. One data value modified original (following   example authors).","code":""},{"path":"/reference/hanks.sprinkler.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"Hanks, R.J., Sisson, D.V., Hurst, R.L, Hubbard K.G. (1980).   Statistical Analysis Results Irrigation Experiments Using   Line-Source Sprinkler System.   Soil Science Society America Journal, 44, 886-888.   https://doi.org/10.2136/sssaj1980.03615995004400040048x","code":""},{"path":"/reference/hanks.sprinkler.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"Johnson, D. E., Chaudhuri, U. N., Kanemasu, E. T. (1983).   Statistical Analysis Line-Source Sprinkler Irrigation Experiments   Nonrandomized Experiments Using Multivariate Methods.   Soil Science Society American Journal, 47, 309-312. Stroup, W. W. (1989).   Use Mixed Model Procedure Analyze Spatially Correlated Data:   Example Applied Line-Source Sprinkler Irrigation Experiment.   Applications Mixed Models Agriculture Related     Disciplines, Southern Cooperative Series Bulletin . 343, 104-122. SAS Stat User's Guide.   https://support.sas.com/documentation/cdl/en/statug/63347/HTML/default/viewer.htm#statug_mixed_sect038.htm","code":""},{"path":"/reference/hanks.sprinkler.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat yields in a line-source sprinkler experiment — hanks.sprinkler","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(hanks.sprinkler)   dat <- hanks.sprinkler    # The line sprinkler is vertical between subplots 6 & 7   libs(desplot)   desplot(dat, yield~subplot*row,           out1=block, out2=irr, cex=1, # aspect unknown           num=gen, main=\"hanks.sprinkler\")         libs(lattice)   xyplot(yield~subplot|block, dat, type=c('b'), group=gen,          layout=c(1,3), auto.key=TRUE,          main=\"hanks.sprinkler\",          panel=function(x,y,...){            panel.xyplot(x,y,...)            panel.abline(v=6.5, col='wheat')          })       ## This is the model from the SAS documentation   ## proc mixed;   ## class block gen dir irr;   ## model yield = gen|dir|irr@2;   ## random block block*dir block*irr;   ## repeated / type=toep(4) sub=block*gen r;      if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)            dat <- transform(dat, subf=factor(subplot),                      irrf=factor(irr))     dat <- dat[order(dat$block, dat$gen, dat$subplot),]          # In asreml3, we can specify corb(subf, 3)     # In asreml4, only corb(subf, 1) runs.  corb(subf, 3) says:     # Correlation structure is not positive definite     m1 <- asreml(yield ~ gen + dir + irrf + gen:dir + gen:irrf + dir:irrf,                  data=dat,                  random= ~ block + block:dir + block:irrf,                  resid = ~ block:gen:corb(subf, 3))          lucid::vc(m1)     ##                   effect component std.error z.ratio bound      ##                    block  0.2195     0.2378    0.92      P 0.5     ##                block:dir  0.01769    0.03156   0.56      P 0       ##               block:irrf  0.03539    0.0362    0.98      P 0.1     ##         block:gen:subf!R  0.2851     0.05088   5.6       P 0       ## block:gen:subf!subf!cor1  0.02829    0.1142    0.25      U 0.9     ## block:gen:subf!subf!cor2  0.004997   0.1278    0.039     U 9.5     ## block:gen:subf!subf!cor3 -0.3245     0.09044  -3.6       U 0.1          }  } # }"},{"path":"/reference/hanover.whitepine.html","id":null,"dir":"Reference","previous_headings":"","what":"Mating crosses of white pine trees — hanover.whitepine","title":"Mating crosses of white pine trees — hanover.whitepine","text":"Mating crosses white pine trees","code":""},{"path":"/reference/hanover.whitepine.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Mating crosses of white pine trees — hanover.whitepine","text":"","code":"data(\"hanover.whitepine\")"},{"path":"/reference/hanover.whitepine.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Mating crosses of white pine trees — hanover.whitepine","text":"data frame 112 observations following 4 variables. rep replicate female female parent male male parent length epicotyl length, cm","code":""},{"path":"/reference/hanover.whitepine.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Mating crosses of white pine trees — hanover.whitepine","text":"Four male (pollen parent) White Pine trees mated seven female   trees 2654 progeny grown four replications, one plot per   mating replication.  Parent trees sourced Idaho,   USA.  data plot means epicotyl length. Becker (1984) used data demonstrate calculation   heritability.","code":""},{"path":"/reference/hanover.whitepine.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Mating crosses of white pine trees — hanover.whitepine","text":"Hanover, James W Barnes, Burton V. (1962).   Heritability height growth year-old western white pine.   Proc Forest Genet Workshop. 22, 71–76. Walter . Becker (1984).   Manual Quantitative Genetics, 4th ed. Page 83.","code":""},{"path":"/reference/hanover.whitepine.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Mating crosses of white pine trees — hanover.whitepine","text":"None","code":""},{"path":"/reference/hanover.whitepine.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Mating crosses of white pine trees — hanover.whitepine","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(hanover.whitepine)   dat <- hanover.whitepine    libs(lattice)   # Relatively high male-female interaction in growth comared   # to additive gene action. Response is more consistent within   # male progeny than female progeny.   # with(dat, interaction.plot(female, male, length))   # with(dat, interaction.plot(male, female, length))   bwplot(length ~ male|female, data=dat,          main=\"hanover.whitepine - length for male:female crosses\",          xlab=\"Male parent\", ylab=\"Epicotyl length\")      # Progeny sums match Becker p 83   sum(dat$length) # 380.58   aggregate(length ~  female + male, data=dat, FUN=sum)      # Sum of squares matches Becker p 85   m1 <- aov(length ~ rep + male + female + male:female, data=dat)   anova(m1)      # Variance components match Becker p. 85   libs(lme4)   libs(lucid)   m2 <- lmer(length ~ (1|rep) + (1|male) + (1|female) + (1|male:female), data=dat)   #as.data.frame(lme4::VarCorr(m2))   vc(m2)   ##         grp        var1 var2    vcov  sdcor   ## male:female (Intercept) <NA> 0.1369  0.3699   ##      female (Intercept) <NA> 0.02094 0.1447   ##        male (Intercept) <NA> 0.1204  0.3469   ##         rep (Intercept) <NA> 0.01453 0.1205   ##    Residual        <NA> <NA> 0.2004  0.4477      # Becker used this value for variability between individuals, within plot   s2w <- 1.109      # Calculating heritability for individual trees   s2m <- .120   s2f <- .0209   s2mf <- .137   vp <- s2m + s2f + s2mf + s2w  # variability of phenotypes = 1.3869   4*s2m / vp # heritability male 0.346   4*s2f / vp # heritability female 0.06   2*(s2m+s2f)/vp # heritability male+female .203   # As shown in the boxplot, heritability is stronger through the   # males than through the females. } # }"},{"path":"/reference/hansen.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Multi-year uniformity trial Denmark","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"","code":"data(\"hansen.multi.uniformity\")"},{"path":"/reference/hansen.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"data frame 662 observations following 6 variables. field field name year year crop crop yield yield (percent mean) row row col column","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Uniformity trials carried 1906 1911 two fields   Aarslev, Denmark. yield values expressed percent mean   yield year. scale map Hansen shows \"Alen\" scale. See   https://en.wikipedia.org/wiki/Alen_(unit_of_length) Danish alen =   62.77 cm. Field A2: Based map, field approximately 60 alen x 70 alen (38 m x   44 m), orientation field clear.  Plots   probably circa 7.4 m side. Divided 30 plots – 6 strips 5.  crops grown : 1907   oats, 1908 rye, 1909 barley, 1910 mangolds, 1911 barley. Sanders said: appeared two printer errors paper.   field A2 yields given 1908 add 3010 instead 3000:   reference Fig. 6 given seemed indicate   excess lay row 3 eventually decided reduce plots 3c   96 3f 84. Field E2: Field approximately 120 alen x 200 alen (76m x 125m).  Plots   probably circa 8-9m side. Divided 128 plots: 16 strips 8.  Crops grown: 1906 oats, 1907   barley, 1908 seeds, 1909 rye. Sanders said, remarkable oscillation fertility across   field E2 one direction, 1st, 3rd, ...  15th strips (columns)   consistently giving much higher yields 2nd, 4th, ... 16th   strips (columns). fact four years odd numbered strips   gave total yield 27,817, compared 23,383 even   numbered strips.  oscillation apparently arose legacy   old practice ploughing high ridges: tops ridges   exhibited greater fertility borders furrows,   soil worked former latter field leveled   . meant site old furrows good   depth rich soil, whilst shallow ridges   . strips arranged cover site furrow   ridge alternately, result noted .  Sanders:   order escape variation, table condensed taking 2   strips together (new strips included whole one   old \"lands\") making 8 8 square. Sanders said: field E2 1908, column 10 sums 791 instead   786 shown: reference Fig. 13 indicated yield   plot 10g probably 92 instead 97. version data package uses changes suggested Sanders. Data typed K.Wright.","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Hansen, Niels Anton (1914).   Prøvedyrkning paa Forsøgsstationen ved Aarslev.   Page 557 field A2. Page 562 field E2.   https://dca.au.dk/publikationer/historiske/planteavl","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"Eden, T. E. J. Maskell. (1928).   influence soil heterogeneity growth yield   successive crops.   Journal Agricultural Science, 18, 163-185.   https://archive.org/stream/.ernet.dli.2015.25895/2015.25895.Journal--Agricultural-Science-Vol-xviii-1928#page/n175 Sanders, H. G. 1930.   note value uniformity trials subsequent experiments.   Journal Agricultural Science. 20, 63-73.   https://dx.doi.org/10.1017/S0021859600088626   https://repository.rothamsted.ac.uk/item/97039/-note---value--uniformity-trials--subsequent-experiments","code":""},{"path":"/reference/hansen.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-year uniformity trial in Denmark — hansen.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(hansen.multi.uniformity)   dat <- hansen.multi.uniformity      # Field A2: Average across years   libs(dplyr,reshape2)   #dat     # Field E2: Match column totals   #dat     # Heatmaps. Aspect ratio is an educated guess   libs(dplyr, desplot)   dat <- dat    dat    dat     # Look at correlation of experimental unit plots across years   libs(dplyr, reshape2, lattice)   dat <- mutate(dat, plot=paste(row,col))   mat1 <- filter(dat, field==\"A2\")    splom(mat1, main=\"hansen.multi.uniformity field A2\")   mat2 <- filter(dat, field==\"E2\")    splom(mat2, main=\"hansen.multi.uniformity field A2\")  } # }"},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Uniformity trial sugar beet Russia.","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"","code":"data(\"haritonenko.sugarbeet.uniformity\")"},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"data frame 416 observations following 3 variables. row Row ordinate col Column ordinate yield Yield pfund per plot","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Roemer (1920) says: Haritonenko (36), experiment Ivanovskoye Agricultural   Experimental Station, Novgorod Governorate.   test area 5.68 ha 416 sections (plots) 136.5 square   meters.   Row 1 significantly less soil three rows. Based heatmap, 'Row 1' left column. Roemer p. 63 says: Table 4: Root yield pfund 30 quadratfaden (1.33 x   22.5). use 1 faden = 7 feet, :   (1.33 faden * 7 feet) * (22.5 faden * 7 feet) * 416 plots = 609991 sq   feet = 5.68 hectares, matches experiment description. 'pfund' (Germany pound) today defined 500g, 1920 might   different, perhaps 467g??? Field width: 4 plots * (22.5 faden * 7 feet/faden) = 630 feet. Field length: 104 plots * (1.33 faden * 7 feet/faden) = 968 feet. Note: Cochran says plots 8 x 135 ft. seems based 1   faden = 6 feet, match total area 5.68 ha. Note: name Haritonenko sometimes translated English :   Pavel Kharitonenko. original name Russian : Павел Иванович   Харитоненко . data typed K.Wright Roemer (1920), table 4, p. 63.","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Haritonenko, Pavlo.   Neue Präzisionsmethoden auf den Versuchsfeldern.   Arbeiten der landw. Versuchsstation Iwanowskoje 1904-06, S. 159.   Russian German summary.","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180. Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/haritonenko.sugarbeet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugar beet — haritonenko.sugarbeet.uniformity","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(haritonenko.sugarbeet.uniformity)   dat <- haritonenko.sugarbeet.uniformity    mean(dat$yield) # 615.68. # Roemer page 37 says 617      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(104*1.33*7)/(4*22.5*7), ticks=TRUE,           main=\"haritonenko.sugarbeet.uniformity\")    } # }"},{"path":"/reference/harris.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"Uniformity trials multiple crops, Huntley Field Station,   Montana, 1911-1925.","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"data frame 1058 observations following 5 variables. series series (field coordinate) plot plot number (field ordinate) year year, 1911-1925 crop crop yield yield per plot (pounds)","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"yields given Harris (1920) (Practical universality...) given quarter-plots. yields given Harris (1920) (Permanence ...) yields given Harris (1928) given single plots. Field width: 2 plots * 317 ft  + 5 feet alley = 639 feet Field length: 23 plots * 23.3 feet = 536 feet yields given pound per plot.   original data Harris (1920) 1911 sugarbeet yields   tons/ac,  (Harris 1920, table 3 footnote), converted   pounds/plot purpose dataset. Harris (1928) shows map location page 16. Harris (1920): 1911: spring 1911 field laid 46 plots,   measuring 23.5 317 feet containing 0.17 acre, arranged   two parallel series 23 plots . two series plots   separated merely temporary irrigation ditch. 1911   planted sugar beets. 1912: spring 1912 seeded   alfalfa, one cutting harvested year. stand remained   ground 1913 1914, entire field   fall-plowed. 1913: Three cuttings made, third cutting   lost heavy wind scattered mixed crop   weighings various plots made. first cutting,   designated alfalfa , made plots one-half original   size. second cutting harvested plots one-quarter   original size. 1914: first second cuttings 1914 weighed   plots one-quarter original size–, 0.0425-acre plots–  third cutting recorded plots one-third original   size. furnish data alfalfa , II, III 1914.   Total yields first second cuttings 1913 1914   first, second, third cuttings 1914 also considered. 1915: Ear corn. 1916: Ear corn. 1917: fields planted oats, records made grain,   straw, total yield. 1918: Silage corn grown. 1919: land produced crop barley. 1920: Silage corn 1921 Alfalfa 1922 Alfalfa, cutting 3 1923 Alfalfa, cutting 1 3 1914 Alfalfa, cutting 2 3 Harris (1928): southeast corner Series II, east series,   80 feet main canal, southwest corner Series   III 50 feet Ouster Coulee. main project canal   carries normally irrigation season 400 second-feet   water. water surface canal 4 feet high   corner field. evident surface conditions, well   borings made canal field,   extensive seepage canal subsoil field.   volume seepage larger recent years   earlier years cropping experiments, probably   canal bank worn away internal erosion, exposing stratum   sandy subsoil underlies canal part field. Whereas earlier crops Series II better alfalfa, Series   III better alfalfa later period.  writers feel   inclined suggest earlier experiments height   water table harmful effect upon deep-rooted crop   alfalfa.  quite possible drier periods higher   water table actually favored alfalfa growth Series II. higher   water tables recent years probably deleterious   influence, especially marked Series II,   water apparently comes nearer surface Series III.","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"Harris, J Arthur Scofield, CS. (1920).   Permanence differences plats experimental field.   Jour. Agr. Res, 20, 335-356.   https://naldc.nal.usda.gov/catalog/IND43966236   https://www.google.com/books/edition/Journal_of_the_American_Society_of_Agron/Zwz0AAAAMAAJ?hl=en&gbpv=1&pg=PA257   data 1911-1919. Harris, J Arthur Scofield, CS. (1928).   studies permanence differences plots   experimental field.   Jour. Agr. Res, 36, 15–40.   https://naldc.nal.usda.gov/catalog/IND43967538   data 1920-1925.","code":""},{"path":"/reference/harris.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials with multiple crops, 15 years on the same land — harris.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{ library(agridat)  data(harris.multi.uniformity) dat <- harris.multi.uniformity # Combine year/crop into 'harvest' dat <- transform(dat, harv = factor(paste0(year,\".\",crop)))  # Average yields. Harris 1928, table 2. aggregate(yield~harv, dat, mean)  # Corrgram libs(reshape2,corrgram) mat <- acast(dat, series+plot~harv, value.var='yield') corrgram(mat, main=\"harris.multi.uniformity - correlation of crop yields\")   # Compare to Harris 1928, table 4.  More positive than negative correlations. # densityplot(as.vector(cor(mat)), xlab=\"correlations\", #             main=\"harris.multi.uniformity\")     # Standardize yields for each year mats <- scale(mat) # Melt and re-name columns so we can make field maps.  Obvious spatial # patterns that persist over years d2 <- melt(mats) names(d2) <- c('ord','harv','yield') d2$series <- as.numeric(substring(d2$ord,1,1)) d2$plot <- as.numeric(substring(d2$ord,3))  # Series 2 is on the east side, so switch 2 and 3 for correct plotting d2$xord <- 5 - dat$series # Note that for alfalfa, higher-yielding plots in 1912-1914 were # lower-yielding in 1922-1923. # Heatmaps for individual year/harvest combinations libs(desplot) desplot(d2, yield ~ xord*plot|harv,         aspect=536/639, flip=TRUE, # true aspect         main=\"harris.multi.uniformity\")  # Crude fertility map by averaging across years shows probable # sub-surface water effects agg <- aggregate(yield ~ xord + plot, data=d2, mean) desplot(agg, yield ~ xord + plot,         aspect=536/639, # true aspect         main=\"harris.multi.uniformity fertility\")  } # }"},{"path":"/reference/harris.wateruse.html","id":null,"dir":"Reference","previous_headings":"","what":"Water use by horticultural trees — harris.wateruse","title":"Water use by horticultural trees — harris.wateruse","text":"Water use horticultural trees","code":""},{"path":"/reference/harris.wateruse.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Water use by horticultural trees — harris.wateruse","text":"data frame 1040 observations following 6 variables. species species factor, 2 levels age age factor, 2 levels tree tree factor, 40 (non-consecutive) levels day day, numeric water water use, numeric","code":""},{"path":"/reference/harris.wateruse.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Water use by horticultural trees — harris.wateruse","text":"Ten trees four groups (two species, two ages)   assessed water usage, approximately every five days. Missing values included benefit asreml, needs   'balanced' data set due kronecker-like syntax R matrix. Used permission Roger Harris Virginia Polytechnic.","code":""},{"path":"/reference/harris.wateruse.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Water use by horticultural trees — harris.wateruse","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil Sciences.   CRC Press.  Page 512.","code":""},{"path":"/reference/harris.wateruse.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Water use by horticultural trees — harris.wateruse","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(harris.wateruse)   dat <- harris.wateruse    # Compare to Schabenberger & Pierce, fig 7.23   libs(latticeExtra)   useOuterStrips(xyplot(water ~ day|species*age,dat, as.table=TRUE,                         group=tree, type=c('p','smooth'),                         main=\"harris.wateruse 2 species, 2 ages (10 trees each)\"))     # Note that measurements on day 268 are all below the trend line and   # thus considered outliers.  Delete them.   dat <- subset(dat, day!=268)     # Schabenberger figure 7.24   xyplot(water ~ day|tree,dat, subset=age==\"A2\" & species==\"S2\",          as.table=TRUE, type=c('p','smooth'),          ylab=\"Water use profiles of individual trees\",          main=\"harris.wateruse (Age 2, Species 2)\")      # Rescale day for nicer output, and convergence issues, add quadratic term   dat <- transform(dat, ti=day/100)   dat <- transform(dat, ti2=ti*ti)    # Start with a subgroup: age 2, species 2   d22 <- droplevels(subset(dat, age==\"A2\" & species==\"S2\"))    # ----- Model 1, for subgroup A2,S2    # First, a fixed quadratic that is common to all trees, plus   # a random quadratic deviation for each tree.      ## Schabenberger, Output 7.26   ## proc mixed;   ##   class tree;   ##   model water = ti ti*ti / s;   ##   random intercept ti ti*ti/subject=tree;    libs(nlme,lucid)   ## We use pdDiag() to get uncorrelated random effects   m1n <- lme(water ~ 1 + ti + ti2, data=d22, na.action=na.omit,              random = list(tree=pdDiag(~1+ti+ti2)))   # lucid::vc(m1n)   ##       effect variance    stddev   ##  (Intercept)   0.2691 0.5188   ##           ti   0      0.0000144   ##          ti2   0      0.0000039   ##     Residual   0.1472 0.3837     # Various other models with lme4 & asreml        libs(lme4, lucid)   m1l <- lmer(water ~ 1 + ti + ti2 + (1|tree) +                 (0+ti|tree) + (0+ti2|tree), data=d22)   # lucid::vc(m1l)   ##      grp        var1 var2   vcov  sdcor   ##     tree (Intercept) <NA> 0.2691 0.5188   ##   tree.1          ti <NA> 0      0   ##   tree.2         ti2 <NA> 0      0   ## Residual        <NA> <NA> 0.1472 0.3837     # Once the overall quadratic trend has been removed, there is not   # too much evidence for consecutive observations being correlated   ## d22r <- subset(d22, !is.na(water))   ## d22r$res <- resid(m1n)   ## xyplot(res ~ day|tree,d22r,   ##        as.table=TRUE, type=c('p','smooth'),   ##        ylab=\"residual\",   ##        main=\"harris.wateruse - Residuals of individual trees\")   ## op <- par(mfrow=c(4,3))   ## tapply(d22r$res, d22r$tree, acf)   ## par(op)      # ----- Model 2, add correlation of consecutive measurements      ## Schabenberger (page 516) adds correlation.   ## Note how the fixed quadratic model is on the \"ti = day/100\" scale   ## and the correlated observations are on the \"day\" scale.  The   ## only impact this has on the fitted model is to increase the   ## correlation parameter by a factor of 100, which was likely   ## done to get better convergence.      ## proc mixed data=age2sp2;   ##   class tree;   ##   model water = ti ti*ti / s ;   ##   random intercept /subject=tree s;   ##   repeated /subject=tree type=sp(exp)(day);    ## Same as SAS, use ti for quadratic, day for correlation   m2l <- lme(water ~ 1 + ti + ti2, data=d22,              random = ~ 1|tree,              cor = corExp(form=~ day|tree),              na.action=na.omit)   m2l # Match output 7.27.  Same fixef, ranef, variances, exp corr    # lucid::vc(m2l)   ##       effect variance stddev   ##  (Intercept)   0.2656 0.5154   ##     Residual   0.1541 0.3926      # ---      ## Now use asreml.  When I tried rcov=~tree:exp(ti),   ## the estimated parameter value was on the 'boundary', i.e. 0.   ## Changing rcov to the 'day' scale produced a sensible estimate   ## that matched SAS.   ## Note: SAS and asreml use different parameterizations for the correlation   ## SAS uses exp(-d/phi) and asreml uses phi^d.   ## SAS reports 3.79, asreml reports 0.77, and exp(-1/3.7945) = 0.7683274   ## Note: normally a quadratic would be included as 'pol(day,2)'    if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     d22 <- d22[order(d22$tree, d22$day),]     m2a <- asreml(water ~ 1 + ti + ti2,                   data=d22,                   random = ~ tree,                   residual=~tree:exp(day))     lucid::vc(m2a)     ##         effect component std.error z.ratio constr     ##  tree!tree.var    0.2656   0.1301      2      pos     ##     R!variance    0.1541   0.01611     9.6    pos     ##      R!day.pow    0.7683   0.04191    18    uncon   }          # ----- Model 3. Full model for all species/ages.  Schabenberger p. 518      ## /* Continuous AR(1) autocorrelations included      */   ## proc mixed data=wateruse;   ##   class age species tree;   ##   model water = age*species age*species*ti age*species*ti*ti / noint s;   ##   random intercept ti / subject=age*species*tree s;   ##   repeated / subject=age*species*tree type=sp(exp)(day);         m3l <- lme(water ~ 0 + age:species + age:species:ti + age:species:ti2,              data=dat, na.action=na.omit,              random = list(tree=pdDiag(~1+ti)),              cor = corExp(form=~ day|tree) )      m3l # Match Schabenberger output 7.27.  Same fixef, ranef, variances, exp corr    # lucid::vc(m3l)   ##       effect variance stddev   ##  (Intercept)  0.1549  0.3936   ##           ti  0.02785 0.1669   ##     Residual  0.16    0.4    # --- asreml        if(require(\"asreml\", quietly=TRUE)){     dat <- dat[order(dat$tree,dat$day),]     m3a <- asreml(water ~ 0 + age:species + age:species:ti + age:species:ti2,                   data=dat,                   random = ~ age:species:tree + age:species:tree:ti,                   residual = ~ tree:exp(day) )          # lucid::vc(m3a) # Note: day.pow = .8091 = exp(-1/4.7217)     ##                       effect component std.error z.ratio constr     ##     age:species:tree!age.var   0.1549   0.07192      2.2    pos     ##  age:species:tree:ti!age.var   0.02785  0.01343      2.1    pos     ##                   R!variance   0.16     0.008917    18      pos     ##                    R!day.pow   0.8091   0.01581     51    uncon   }    } # }"},{"path":"/reference/harrison.priors.html","id":null,"dir":"Reference","previous_headings":"","what":"Ranges of analytes in soybean from other authors — harrison.priors","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Ranges analytes soybean authors","code":""},{"path":"/reference/harrison.priors.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"data frame 80 observations following 5 variables. source Source document substance Analyte substance min minimum amount (numeric) max maximum analyte amount (numeric) number number substances","code":""},{"path":"/reference/harrison.priors.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Harrison et al. show construct informative Bayesian prior   previously-published ranges concentration several   analytes. units daidzein, genistein, glycitein micrograms per   gram. raffinose stachyose units converted common 'percent'   scale. author names 'source' variable shortened forms   citations supplemental information Harrison et al.","code":""},{"path":"/reference/harrison.priors.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Jay M. Harrison, Matthew L. Breeze, Kristina H. Berman, George   G. Harrigan. 2013.   Bayesian statistical approaches compositional analyses transgenic   crops 2. Application validation informative prior distributions.   Regulatory Toxicology Pharmacology, 65, 251-258.   https://doi.org/10.1016/j.yrtph.2012.12.002 Data retrieved Supplemental Information source.","code":""},{"path":"/reference/harrison.priors.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"Jay M. Harrison, Derek Culp, George G. Harrigan. 2013.   Bayesian MCMC analyses regulatory assessments safety food composition   Proceedings 24th Conference Applied Statistics     Agriculture (2012).","code":""},{"path":"/reference/harrison.priors.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Ranges of analytes in soybean from other authors — harrison.priors","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(harrison.priors) dat <- harrison.priors  d1 <- subset(dat, substance==\"daidzein\")  # Stack the data to 'tall' format and calculate empirical cdf d1t <- with(d1, data.frame(xx = c(min, max), yy=c(1/(number+1), number/(number+1))))  # Harrison 2012 Example 4: Common prior distribution # Harrison uses the minimum and maximum levels of daidzein from previous # studies as the first and last order statistics of a lognormal # distribution, and finds the best-fit lognormal distribution.  m0 <- mean(log(d1t$xx)) # 6.37 s0 <- sd(log(d1t$xx)) # .833 mod <- nls(yy ~ plnorm(xx, meanlog, sdlog), data=d1t,            start=list(meanlog=m0, sdlog=s0)) coef(mod) # Matches Harrison 2012 ##   meanlog     sdlog ## 6.4187829 0.6081558  plot(yy~xx, data=d1t, xlim=c(0,2000), ylim=c(0,1),      main=\"harrison.priors - Common prior\", xlab=\"daidzein level\", ylab=\"CDF\") mlog <- coef(mod)[1] # 6.4 slog <- coef(mod)[2] # .61 xvals <- seq(0, 2000, length=100) lines(xvals, plnorm(xvals, meanlog=mlog, sdlog=slog))   d1a <- d1 d1a$source <- as.character(d1a$source) d1a[19,'source'] <- \"(All)\" # Add a blank row for the densitystrip d1 libs(latticeExtra) # Plot the range for each source, a density curve (with arbitary # vertical scale) for the common prior distribution, and a density # strip by stacking the individual bands and using transparency segplot(factor(source) ~ min+max, d1a,         main=\"harrison.priors\",xlab=\"daidzein level\",ylab=\"source\") +   xyplot(5000*dlnorm(xvals, mlog, slog)~xvals, type='l') +   segplot(factor(rep(1,18)) ~ min+max, d1, 4, level=d1$number,           col.regions=\"gray20\", alpha=.1)  } # }"},{"path":"/reference/hartman.tomato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tomato — hartman.tomato.uniformity","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"Uniformity trial tomato Indiana","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"","code":"data(\"hartman.tomato.uniformity\")"},{"path":"/reference/hartman.tomato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"data frame 384 observations following 3 variables. row row col column yield yield, pounds per plot","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"Grown Indiana 1941. column ordinates R package dataset quite exactly   field due presence roads. Plants spaced 3 feet apart rows 6 feet apart, 330 feet   long. row divided 3 sections 34 plants sparated   strips 12 feet long provide roadways vehicles. row divided 4-plant plots, 8 plots section   row one plant left guard end section. 49 plants missing 3072 total plants, ignored. Note, data given Table 1 Hartman 8-plant plots! Field width: 3 sections (34 plants * 3 feet) + 2 roads * 12 feet = 330 feet. Field length: 32 rows * 6 feet = 192 feet oriented page, plots , average, 330/12=27.5. feet wide, 6 feet tall. Discussion notes Hartman. Total yield 26001 pounds. Hartman says yield field   10.24 tons per acre, can verify: 26001 lb/field * (1/384 field/plot) * (1/(24*6) plot/ft2) * (43560 ft2/acre) * (1/2000 tons/lb) = 10.24 tons/acre rows top/bottom (north/south) intended guard rows,   yields similar rows, suggesting competition   rows exist. comparing varieties, 96*6 foot plots   work well.","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"J. D. Hartman E. C. Stair (1942).   Field Plot Technique Tomatoes.   Proceedings American Society Horticultural Science, 41,   315-320.   https://archive.org/details/.ernet.dli.2015.240678","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"None","code":""},{"path":"/reference/hartman.tomato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tomato — hartman.tomato.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(hartman.tomato.uniformity) libs(desplot) desplot(hartman.tomato.uniformity, yield ~ col*row,          flip=TRUE, tick=TRUE, aspect=192/330, # true aspect         main=\"hartman.tomato.uniformity\")  } # }"},{"path":"/reference/harvey.lsmeans.html","id":null,"dir":"Reference","previous_headings":"","what":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"Average daily gain 65 steers 3 lines, 9 sires.","code":""},{"path":"/reference/harvey.lsmeans.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"","code":"data(\"harvey.lsmeans\")"},{"path":"/reference/harvey.lsmeans.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"data frame 65 observations following 7 variables. line line dam sire sire damage age class dam calf calf number weanage calf age weaning weight calf weight start feeding adg average daily gain","code":""},{"path":"/reference/harvey.lsmeans.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"average daily gain 'adg' 65 Hereford steers. calf age weaning initial weight beginning   test feeding also given. steers fed length time feed lot. assumed calf unique dam twins   repeat matings. Harvey (1960) one earliest papers presenting least squares   means (lsmeans).","code":""},{"path":"/reference/harvey.lsmeans.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"Harvey, Walter R. (1960).   Least-squares Analysis Data Unequal Subclass Numbers.   Technical Report ARS 20-8. USDA, Agricultural Research Service.   Page 101-102. Reprinted ARS H-4, 1975.   https://archive.org/details/leastsquaresanal04harv","code":""},{"path":"/reference/harvey.lsmeans.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"Also appears 'dmm' package 'harv101.df'  See package   vignette complete analysis data.","code":""},{"path":"/reference/harvey.lsmeans.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Average daily gain of 65 steers for 3 lines, 9 sires. — harvey.lsmeans","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(harvey.lsmeans) dat = harvey.lsmeans  libs(lattice) dotplot(adg ~ sire|line,dat,         main=\"harvey.lsmeans\", xlab=\"sire\", ylab=\"average daily gain\")  # Model suggested by Harvey on page 103 m0 <- lm(adg ~ 1 + line + sire + damage + line:damage + weanage +          weight, data=dat)  # Due to contrast settings, it can be hard to compare model coefficients to Harvey, # but note the slopes of the continuous covariates match Harvey p. 107, where his # b is weanage, d is weight # coef(m0) #       weanage       weight  #  -0.008154879  0.001970446    # A quick attempt to reproduce table 4 of Harvey, p. 109. Not right. # libs(emmeans) # emmeans(m0,c('line','sire','damage'))  } # }"},{"path":"/reference/harville.lamb.html","id":null,"dir":"Reference","previous_headings":"","what":"Birth weight of lambs from different lines/sires — harville.lamb","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"Birth weight lambs different lines/sires","code":""},{"path":"/reference/harville.lamb.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"","code":"data(\"harville.lamb\")"},{"path":"/reference/harville.lamb.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"data frame 62 observations following 4 variables. line genotype line number sire sire number damage dam age, class 1,2,3 weight lamb birth weight","code":""},{"path":"/reference/harville.lamb.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"Weight birth 62 lambs. 5 distinct lines. sires multiple lambs. dam one lamb. age dam category: 1 (1-2 years), 2 (2-3 years) 3 (3 years). Note: Jiang, gives data table 1.2, small error.   Jiang weight 9.0 sire 31, line 3, age 3. correct value 9.5.","code":""},{"path":"/reference/harville.lamb.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"David . Harville Alan P. Fenech (1985).   Confidence Intervals Variance Ratio, Heritability,   Unbalanced Mixed Linear Model.   Biometrics, 41, 137-152.   https://doi.org/10.2307/2530650","code":""},{"path":"/reference/harville.lamb.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"Jiming Jiang,   Linear Generalized Linear Mixed Models Applications. Table 1.2. Andre . Khuri, Linear Model Methodology. Table 11.5.  Page 368.   https://books.google.com/books?id=UfDvCAAAQBAJ&pg=PA164 Daniel Gianola, Keith Hammond.   Advances Statistical Methods Genetic Improvement   Livestock. Table 8.1, page 165.","code":""},{"path":"/reference/harville.lamb.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Birth weight of lambs from different lines/sires — harville.lamb","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(harville.lamb) dat <- harville.lamb dat <- transform(dat, line=factor(line), sire=factor(sire), damage=factor(damage))  library(lattice) bwplot(weight ~ line, dat,        main=\"harville.lamb\",        xlab=\"line\", ylab=\"birth weights\")  if(0){   libs(lme4, lucid)        m1 <- lmer(weight ~  -1 + line + damage + (1|sire), data=dat)   summary(m1)   vc(m1) # Khuri reports variances 0.5171, 2.9616   ##      grp        var1 var2   vcov  sdcor   ##     sire (Intercept) <NA> 0.5171 0.7191   ## Residual        <NA> <NA> 2.962  1.721    }  } # }"},{"path":"/reference/hayman.tobacco.html","id":null,"dir":"Reference","previous_headings":"","what":"Diallel cross of Aztec tobacco — hayman.tobacco","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"Diallel cross Aztec tobacco 2 reps","code":""},{"path":"/reference/hayman.tobacco.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"year year block block factor, 2 levels male male parent, 8 levels female female parent day mean flowering time (days)","code":""},{"path":"/reference/hayman.tobacco.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"Data collected 1951 (Hayman 1954a) 1952 (Hayman 1954b). year 8 varieties Aztec tobacco, Nicotiana rustica L.. cross/self represented 10 progeny, two plots 5   plants .  data mean flowering time per plot. Note, 1951 data published Hayman (1954a) Table 5 contain   \"10 times mean flowering time\".  data divided   10 comparable 1952 data. Hayman (1954b) says \"Table 2 lists...three characters diallel   cross Nicotiana rustica varieties repeated three years.\"   seems indicate varieties 1951   1952.  Calculating GCA effects separately 1951 1952   comparing estimates shows highly correlated.","code":""},{"path":"/reference/hayman.tobacco.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"B. . Hayman (1954a). Analysis Variance Diallel Tables.   Biometrics, 10, 235-244.  Table 5, page 241.   https://doi.org/10.2307/3001877 Hayman, B.. (1954b). theory analysis diallel crosses.   Genetics, 39, 789-809.  Table 3, page 805.   https://www.genetics.org/content/39/6/789.full.pdf","code":""},{"path":"/reference/hayman.tobacco.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"# 1951 data Mohring, Melchinger, Piepho. (2011).   REML-Based Diallel Analysis.   Crop Science, 51, 470-478. # 1952 data C. Clark Cockerham B. S. Weir. (1977).   Quadratic analyses reciprocal crosses.   Biometrics, 33, 187-203.  Appendix C. Andrea Onofri, Niccolo Terzaroli, Luigi Russi (2020).   Linear models diallel crosses: review R functions.   Theoretical Applied Genetics.   https://doi.org/10.1007/s00122-020-03716-8","code":""},{"path":"/reference/hayman.tobacco.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Diallel cross of Aztec tobacco — hayman.tobacco","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)      # 1951 data.  Fit the first REML model of Mohring 2011 Supplement.     data(hayman.tobacco)   dat1 <- subset(hayman.tobacco, year==1951)       # Hayman's model   # dat1 <- subset(hayman.tobacco, year==1951)   # libs(lmDiallel)   # m1  <- lm.diallel(day ~ male+female, Block=block, data=dat1, fct=\"HAYMAN2\")   # anova(m1) # Similar to table 7 of Hayman 1954a   ## Response: day   ##                Df  Sum Sq Mean Sq F value    Pr(>F)       ## Block           1    1.42    1.42  0.3416   0.56100       ## Mean Dom. Dev.  1  307.97  307.97 73.8840 3.259e-12 ***   ## GCA             7 2777.17  396.74 95.1805 < 2.2e-16 ***   ## Dom. Dev.       7  341.53   48.79 11.7050 1.957e-09 ***   ## SCA            20  372.89   18.64  4.4729 2.560e-06 ***   ## RGCA            7   67.39    9.63  2.3097   0.03671 *     ## RSCA           21  123.73    5.89  1.4135   0.14668       ## Residuals      63  262.60                                     # Griffing's model   # https://www.statforbiology.com/2021/stat_met_diallel_griffing/   # dat1 <- subset(hayman.tobacco, year==1951)   # libs(lmDiallel)   # contrasts(dat1$block) <- \"contr.sum\"   # dmod1 and dmod2 are the same model with different syntax   # dmod1 <- lm(day ~ block + GCA(male, female) + tSCA(male, female) +   #               REC(male, female) , data = dat1)   # dmod2 <- lm.diallel(day ~ male + female, Block=block,    #                     data = dat1, fct = \"GRIFFING1\")   # anova(dmod1)   # anova(dmod2)   ## Response: day   ##             Df  Sum Sq Mean Sq F value    Pr(>F)       ## Block        1    1.42    1.42  0.3416   0.56100       ## GCA          7 2777.17  396.74 95.1805 < 2.2e-16 ***   ## SCA         28 1022.38   36.51  8.7599 6.656e-13 ***   ## Reciprocals 28  191.12    6.83  1.6375   0.05369 .     ## Residuals   63  262.60                                     # Make a factor 'comb' in which G1xG2 is the same cross as G2xG1   dat1 <- transform(dat1,                     comb =                       ifelse(as.character(male) < as.character(female),                              paste0(male,female), paste0(female,male)))   # 'dr' is the direction of the cross, 0 for self   dat1$dr <- 1   dat1 <- transform(dat1,                     dr = ifelse(as.character(male) < as.character(female), -1, dr))   dat1 <- transform(dat1,                     dr = ifelse(as.character(male) == as.character(female), 0, dr))      # asreml r version 3 & 4 code for Mixed Griffing.   # Mohring Table 2, column 2 (after dividing by 10^2) gives variances:   # GCA 12.77, SCA 11.09, RSCA .65, Error 4.23.   # Mohring Supplement ASREML code part1 model is:   # y ~ mu r !r mother and(father) combination combination.dr   # Note that the levels of 'male' and 'female' are the same, so the   # and(female) term tells asreml to use the same levels (or, equivalently,   # fix the correlation of the male/female levels to be 1.   # The block effect is minimial and therefore ignored.   ## libs(asreml, lucid)   ## m1 <- asreml(day~1, data=dat1,   ##              random = ~ male + and(female) + comb + comb:dr)   ## vc(m1)   ##           effect component std.error z.ratio      con   ##    male!male.var   12.77      7.502      1.7 Positive   ##    comb!comb.var   11.11      3.353      3.3 Positive   ## comb:dr!comb.var    0.6603    0.4926     1.3 Positive   ##       R!variance    4.185     0.7449     5.6 Positive      # ----------      # 1952 data. Reproduce table 3 and figure 2 of Hayman 1954b.      dat2 <- subset(hayman.tobacco, year==1952)      # Does flowering date follow a gamma distn?  Maybe.   libs(lattice)   densityplot(~day, data=dat2, main=\"hayman.tobacco\",               xlab=\"flowering date\")         d1 <- subset(dat2, block=='B1')   d2 <- subset(dat2, block=='B2')      libs(reshape2)   m1 <- acast(d1, male~female, value.var='day')   m2 <- acast(d2, male~female, value.var='day')      mn1 <- (m1+t(m1))/2   mn2 <- (m2+t(m2))/2      # Variance and covariance of 'rth' offspring   vr1 <- apply(mn1, 1, var)   vr2 <- apply(mn2, 1, var)   wr1 <- apply(mn1, 1, cov, diag(mn1))   wr2 <- apply(mn2, 1, cov, diag(mn2))   # Remove row names to prevent a mild warning   rownames(mn1) <- rownames(mn2) <- NULL   summ <- data.frame(rbind(mn1,mn2))   summ$block <- rep(c('B1','B2'), each=8)   summ$vr <- c(vr1,vr2)   summ$wr <- c(wr1,wr2)   summ$male <- rep(1:8,2) # Vr and Wr match Hayman table 3      with(summ, plot(wr~vr, type='n', main=\"hayman.tobacco\"))   with(summ, text(vr, wr, male)) # Match Hayman figure 2   abline(0,1,col=\"gray\")   # Hayman notes that 1 and 3 do not lie along the line,   # so modifies them and re-analyzes.  } # }"},{"path":"/reference/hazell.vegetables.html","id":null,"dir":"Reference","previous_headings":"","what":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"Gross profit 4 vegetable crops 6 years","code":""},{"path":"/reference/hazell.vegetables.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"","code":"data(\"hazell.vegetables\")"},{"path":"/reference/hazell.vegetables.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"data frame 6 observations following 5 variables. year year factor, 6 levels carrot Carrot profit, dollars/acre celery Celery profit, dollars/acre cucumber Cucumber profit, dollars/acre pepper Pepper profit, dollars/acre","code":""},{"path":"/reference/hazell.vegetables.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"values table gross profits (loss) dollars per acre.   criteria example (1) total acres < 200, (2) total   labor < 10000, (3) crop rotation. example shows use linear programming maximize expected profit.","code":""},{"path":"/reference/hazell.vegetables.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"P.B.R. Hazell, (1971).   linear alternative quadratic semivariance programming farm planning   uncertainty.   . J. Agric. Econ., 53, 53-62.   https://doi.org/10.2307/3180297","code":""},{"path":"/reference/hazell.vegetables.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"Carlos Romero, Tahir Rehman. (2003).   Multiple Criteria Analysis Agricultural Decisions. Elsevier.","code":""},{"path":"/reference/hazell.vegetables.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Gross profit for 4 vegetable crops in 6 years — hazell.vegetables","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(hazell.vegetables)   dat <- hazell.vegetables      libs(lattice)   xyplot(carrot+celery+cucumber+pepper ~ year,dat,          ylab=\"yearly profit by crop\",          type='b', auto.key=list(columns=4),          panel.hline=0)    # optimal strategy for planting crops (calculated below)   dat2 <- apply(dat[,-1], 1, function(x) x*c(0, 27.5, 100, 72.5))/1000   colnames(dat2) <- rownames(dat)   barplot(dat2, legend.text=c(\"     0 carrot\", \"27.5 celery\", \" 100 cucumber\", \"72.5 pepper\"),           xlim=c(0,7), ylim=c(-5,120),           col=c('orange','green','forestgreen','red'),           xlab=\"year\", ylab=\"Gross profit, $1000\",           main=\"hazell.vegetables - retrospective profit from optimal strategy\",           args.legend=list(title=\"acres, crop\"))    libs(linprog)   # colMeans(dat[ , -1])   # 252.8333 442.6667 283.8333 515.8333     # cvec = avg across-years profit per acre for each crop   cvec <- c(253, 443, 284, 516)      # Maximize c'x for Ax=b   A <- rbind(c(1,1,1,1), c(25,36,27,87), c(-1,1,-1,1))   colnames(A) <- names(cvec) <- c(\"carrot\",\"celery\",\"cucumber\",\"pepper\")   rownames(A) <- c('land','labor','rotation')    # bvec criteria = (1) total acres < 200, (2) total labor < 10000,   # (3) crop rotation.    bvec <- c(200,10000,0)   const.dir <- c(\"<=\",\"<=\",\"<=\")    m1 <- solveLP(cvec, bvec, A, maximum=TRUE, const.dir=const.dir, lpSolve=TRUE)   # m1$solution # optimal number of acres for each crop   #   carrot    celery  cucumber    pepper   #  0.00000  27.45098 100.00000  72.54902      # Average income for this plan   ## sum(cvec * m1$solution)   ## [1] 77996.08    # Year-to-year income for this plan   ## as.matrix(dat[,-1])    ##           [,1]   ## [1,]  80492.16   ## [2,]  80431.37   ## [3,]  81884.31   ## [4,] 106868.63   ## [5,]  37558.82   ## [6,]  80513.73    # optimum allocation that minimizes year-to-year income variability.   # brute-force search    # For generality, assume we have unequal probabilities for each year.   probs <- c(.15, .20, .20, .15, .15, .15)   # Randomly allocate crops to 200 acres, 100,000 times   #set.seed(1)   mat <- matrix(runif(4*100000), ncol=4)   mat <- 200*sweep(mat, 1, rowSums(mat), \"/\")   # each row is one strategy, showing profit for each of the six years   # profit <- mat    profit <- tcrossprod(mat, as.matrix(dat[,-1])) # Each row is profit, columns are years   # calculate weighted variance using year probabilities   wtvar <- apply(profit, 1, function(x) cov.wt(as.data.frame(x), wt=probs)$cov)   # five best planting allocations that minimizes the weighted variance   ix <- order(wtvar)[1:5]   mat[ix,]   ## carrot celery cucumber pepper   ##          [,1]     [,2]     [,3]     [,4]   ## [1,] 71.26439 28.09259 85.04644 15.59657   ## [2,] 72.04428 27.53299 84.29760 16.12512   ## [3,] 72.16332 27.35147 84.16669 16.31853   ## [4,] 72.14622 29.24590 84.12452 14.48335   ## [5,] 68.95226 27.39246 88.61828 15.03700  } # }"},{"path":"/reference/heady.fertilizer.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Yield corn, alfalfa, clover two fertilizers","code":""},{"path":"/reference/heady.fertilizer.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"","code":"data(\"heady.fertilizer\")"},{"path":"/reference/heady.fertilizer.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"data frame 81 observations following 3 variables. crop crop rep replicate (block) P phosphorous, pounds/acre K potassium, pounds/acre N nitrogen, pounds/acre yield yield","code":""},{"path":"/reference/heady.fertilizer.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Heady et al. fit two-variable semi-polynomial response surfaces   crop. Clover alfalfa yields tons/acre.   clover alfalfa experiments grown 1952. Corn yields given bu/acre.   corn experiments grown 1952 1953.  test plots   used 1953 1952, fertilizer   applied 1953–response yield due residual fertilizer   1952. experiments used incomplete factorial design.   treatment combinations present.","code":""},{"path":"/reference/heady.fertilizer.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Earl O. Heady, John T. Pesek, William G. Brown. (1955).   Crop Response Surfaces Economic Optima Fertilizer Use.   Agricultural Experiment Station, Iowa State College. Research bulletin   424.  Pages 330-332.   https://lib.dr.iastate.edu/cgi/viewcontent.cgi?filename=12&article=1032&context=ag_researchbulletins&type=additional","code":""},{"path":"/reference/heady.fertilizer.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"Pesek, John Heady, Earl O. 1956.   two nutrient-response function determination economic optima   rate grade fertilizer alfalfa.   Soil Science Society America Journal, 20, 240-246.   https://doi.org/10.2136/sssaj1956.03615995002000020025x","code":""},{"path":"/reference/heady.fertilizer.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield of corn, alfalfa, clover with two fertilizers — heady.fertilizer","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(heady.fertilizer) dat <- heady.fertilizer  libs(lattice) xyplot(yield ~ P|crop, data=dat, scales=list(relation=\"free\"),        groups=factor(paste(dat$N,dat$K)), auto.key=list(columns=5),        main=\"heady.fertilizer\", xlab=\"Phosphorous\")  # Corn. Matches Heady, p. 292 d1 <- subset(dat, crop==\"corn\") m1 <- lm(yield ~ N + P + sqrt(N) + sqrt(P) + sqrt(N*P), data=d1) summary(m1)   # Alfalfa. Matches Heady, p. 292.  Also Pesek equation 3, p. 241 d2 <- subset(dat, crop==\"alfalfa\") m2 <- lm(yield ~ K + P + sqrt(K) + sqrt(P) + sqrt(K*P), data=d2) summary(m2) ## Coefficients: ##               Estimate Std. Error t value Pr(>|t|) ## (Intercept)  1.8735521  0.1222501  15.326  < 2e-16 *** ## K           -0.0013943  0.0007371  -1.891 0.061237 . ## P           -0.0050195  0.0007371  -6.810 5.74e-10 *** ## sqrt(K)      0.0617458  0.0160142   3.856 0.000196 *** ## sqrt(P)      0.1735383  0.0160142  10.837  < 2e-16 *** ## sqrt(K * P) -0.0014402  0.0007109  -2.026 0.045237 *   # Clover. Matches Heady, p. 292. d3 <- subset(dat, crop==\"clover\") m3 <- lm(yield ~ P + sqrt(K) + sqrt(P) + sqrt(K*P), data=d3) summary(m3)  # Corn with residual fertilizer. Matches Heady eq 56, p. 322. d4 <- subset(dat, crop==\"corn2\") m4 <- lm(yield ~ N + P + sqrt(N) + sqrt(P) + sqrt(N*P), data=d4) summary(m4)    libs(rgl)   with(d1, plot3d(N,P,yield))   with(d2, plot3d(K,P,yield))   with(d3, plot3d(K,P,yield))   with(d4, plot3d(N,P,yield)) # Mostly linear in both N and P   close3d()  } # }"},{"path":"/reference/heath.cabbage.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cabbage. — heath.cabbage.uniformity","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"Uniformity trial cabbage.","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"","code":"data(\"heath.cabbage.uniformity\")"},{"path":"/reference/heath.cabbage.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"data frame 48 observations following 3 variables. yield pounds per plot col column row row","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"Heath says plot .011 acres. acre 43560 sq ft,   plot 479.16 sq feet, rounds 480 sq feet. Heath Figure   3-1 correctly shaped, plot approximately 12 feet x 40 feet   = 480 sq ft.   plot \"350\" plants.   Harvested 1958.","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"O.V.S. Heath (1970).   Investigation Experiment. Fig. 3-1, p. 50.   https://archive.org/details/investigationbye0000heat","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"None.","code":""},{"path":"/reference/heath.cabbage.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cabbage. — heath.cabbage.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(heath.cabbage.uniformity)   dat <- heath.cabbage.uniformity      # Heath Fig 3-1, p. 50   libs(desplot)   desplot(dat, yield ~ col*row,           aspect=(8*12)/(6*40),           main=\"heath.cabbage.uniformity\")  } # }"},{"path":"/reference/heath.raddish.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of radish — heath.radish.uniformity","title":"Uniformity trial of radish — heath.radish.uniformity","text":"Uniformity trial radish four containers.","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of radish — heath.radish.uniformity","text":"","code":"data(\"heath.radish.uniformity\")"},{"path":"/reference/heath.raddish.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of radish — heath.radish.uniformity","text":"data frame 400 observations following 4 variables. row row col column block block yield weight per plant, grams","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of radish — heath.radish.uniformity","text":"Weight 399 radish plants grown 1 inch x 1 inch spacing four plastic basins.   Seed wetted 1968-02-15, planted 1968-02-17, harvested 1968-03-26. Heath said, large plants round edges...one   important source variation might competition light.","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of radish — heath.radish.uniformity","text":"O.V.S. Heath (1970).   Investigation Experiment. Table 1, p 24-25.   https://archive.org/details/investigationbye0000heat","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of radish — heath.radish.uniformity","text":"None","code":""},{"path":"/reference/heath.raddish.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of radish — heath.radish.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   require(agridat)   data(heath.radish.uniformity)   dat <- heath.radish.uniformity   libs(desplot, dplyr)   desplot(dat, yield ~ col*row|block,           aspect=1,           main=\"heath.radish.uniformity\")    # Indicator for border/interior plants   dat <- mutate(dat,                 inner = row > 1 & row < 10 & col >  1 & col < 10)   # Heath has 5.80 and 9.63 (we assume this is a typo of 9.36)   dat <- group_by(dat, inner)   summarize(dat, mean=mean(yield, na.rm=TRUE))   # Interior plots are significantly lower yielding   anova(aov(yield ~ block + inner, dat))   # lattice::bwplot(yield ~ inner, dat, horiz=0)   # similar to Heath fig 2-2   # lattice::histogram( ~ yield|inner, dat, layout=c(1,2), n=20) } # }"},{"path":"/reference/henderson.milkfat.html","id":null,"dir":"Reference","previous_headings":"","what":"Milk fat yields for a single cow — henderson.milkfat","title":"Milk fat yields for a single cow — henderson.milkfat","text":"Average daily fat yields (kg/day) milk single cow 35 weeks.","code":""},{"path":"/reference/henderson.milkfat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Milk fat yields for a single cow — henderson.milkfat","text":"data frame 35 observations following 2 variables. week week, numeric yield yield, kg/day","code":""},{"path":"/reference/henderson.milkfat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Milk fat yields for a single cow — henderson.milkfat","text":"Charles McCulloch.  Workshop Generalized Linear Mixed Models. Used permission Charles McCulloch Harold Henderson.","code":""},{"path":"/reference/henderson.milkfat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Milk fat yields for a single cow — henderson.milkfat","text":"None.","code":""},{"path":"/reference/henderson.milkfat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Milk fat yields for a single cow — henderson.milkfat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(henderson.milkfat) dat <- henderson.milkfat  plot(yield~week, data=dat, cex = 0.8, ylim=c(0,.9),      main=\"henderson.milkfat\", xlab = \"Week\",      ylab = \"Fat yield (kg/day)\")  # Yield ~ a * t^b * exp(g*t) # where t is time m1 <- nls(yield ~ alpha * week^beta * exp(gamma * week),           data=dat,           start=list(alpha=.1, beta=.1, gamma=.1))  # Or, take logs and fit a linear model # log(yield) ~ log(alpha) + beta*log(t)  + gamma*t m2 <- lm(log(yield) ~ 1 + log(week) + week, dat)  # Or, use glm and a link to do the transform m3 <- glm(yield ~ 1 + log(week) + week, quasi(link = \"log\"), dat)  # Note: m2 has E[log(y)] = log(alpha) + beta*log(t)  + gamma*t #  and m3 has  log(E[y]) = log(alpha) + beta*log(t)  + gamma*t  # Generalized additive models libs(\"mgcv\") m4 <- gam(log(yield) ~ s(week), gaussian, dat) m5 <- gam(yield ~ s(week), quasi(link = \"log\"), dat)  # Model predictions pdat <- data.frame(week = seq(1, 35, by = 0.1)) pdat <- transform(pdat, p1 = predict(m1, pdat),                   p2 = exp(predict(m2, pdat)), # back transform                   p3 = predict(m3, pdat, type=\"resp\"), # response scale                   p4 = exp(predict(m4, pdat)),                   p5 = predict(m5, pdat, type=\"response\"))  # Compare fits with(pdat, {   lines(week, p1)   lines(week, p2, col = \"red\", lty=\"dotted\")   lines(week, p3, col = \"red\", lty=\"dashed\")   lines(week, p4, col = \"blue\", lty = \"dashed\")   lines(week, p5, col = \"blue\") })  legend(\"topright\",   c(\"obs\", \"lm, log-transformed\", \"glm, log-link\",     \"gam, log-transformed\", \"gam, log-link\"),   lty = c(\"solid\", \"dotted\", \"dashed\", \"dashed\", \"solid\"),   col = c(\"black\", \"red\", \"red\", \"blue\", \"blue\"),   cex = 0.8, bty = \"n\")  } # }"},{"path":"/reference/hernandez.nitrogen.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"Corn response nitrogen fertilizer 5 sites.","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"data frame 136 observations following 5 variables. site site factor, 5 levels loc location name rep rep, 4 levels nitro nitrogen, kg/ha yield yield, Mg/ha","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"Experiment conducted 2006 5 sites Minnesota.","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"Hernandez, J.. Mulla, D.J. 2008.   Estimating uncertainty economically optimum fertilizer rates,   Agronomy Journal, 100, 1221-1229.   https://doi.org/10.2134/agronj2007.0273 Electronic data kindly supplied Jose Hernandez.","code":""},{"path":"/reference/hernandez.nitrogen.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn with nitrogen fertilizer at 5 sites. — hernandez.nitrogen","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(hernandez.nitrogen)   dat <- hernandez.nitrogen   cprice <- 118.1 # $118.1/Mg or $3/bu   nprice <- 0.6615 # $0.66/kg N or $0.30/lb N      # Hernandez optimized yield with a constraint on the ratio of the prices.   # Simpler to just calculate the income and optimize that.   dat <- transform(dat, inc = yield * cprice - nitro * nprice)   libs(lattice)   xyplot(inc ~ nitro|site, dat, groups=rep, auto.key=list(columns=4),          xlab=\"nitrogen\", ylab=\"income\", main=\"hernandez.nitrogen\")      # Site 5 only   dat1 <- subset(dat, site=='S5')      # When we optimize on income, a simple quadratic model works just fine,   # and matches the results of the nls model below.   # Note, 'poly(nitro)' gives weird coefs   lm1 <- lm(inc ~ 1 + nitro + I(nitro^2), data=dat1)    c1 <- coef(lm1)   -c1[2] / (2*c1[3])   ##    nitro   ## 191.7198    # Optimum nitrogen is 192 for site 5         # Use the delta method to get a conf int   libs(\"car\")   del1 <- deltaMethod(lm1, \"-b1/(2*b2)\", parameterNames= paste(\"b\", 0:2, sep=\"\"))   # Simple Wald-type conf int for optimum   del1$Est +  c(-1,1) * del1$SE * qt(1-.1/2, nrow(dat1)-length(coef(lm1)))   ## 118.9329 264.5067         # Nonlinear regression   # Reparameterize b0 + b1*x + b2*x^2 using th2 = -b1/2b2 so that th2 is optimum   nls1 <- nls(inc ~ th11- (2*th2*th12)*nitro + th12*nitro^2,               data = dat1, start = list(th11 = 5, th2 = 150, th12 =-0.1),)   summary(nls1)   # Wald conf int   wald <- function(object, alpha=0.1){     nobs <- length(resid(object))     npar <- length(coef(object))     est <- coef(object)     stderr <- summary(object)$parameters[,2]     tval <- qt(1-alpha/2, nobs-npar)     ci <- cbind(est - tval * stderr, est + tval * stderr)     colnames(ci) <- paste(round(100*c(alpha/2, 1-alpha/2), 1), \"pct\", sep= \"\")     return(ci)   }   round(wald(nls1),2)   ##          5   ## th11 936.44 1081.93   ## th2  118.93  264.51   # th2 is the optimum   ## th12  -0.03   -0.01         # Likelihood conf int   libs(MASS)   round(confint(nls1, \"th2\", level = 0.9),2)   ##       5   ## 147.96 401.65         # Bootstrap conf int   libs(boot)   dat1$fit <- fitted(nls1)   bootfun <- function(rs, i) { # bootstrap the residuals     dat1$y <- dat1$fit + rs[i]     coef(nls(y ~ th11- (2*th2*th12)*nitro + th12*nitro^2, dat1,              start = coef(nls1) ))   }   res1 <- scale(resid(nls1), scale = FALSE) # remove the mean.  Why? It is close to 0.   set.seed(5) # Sometime the bootstrap fails, but this seed works   boot1 <- boot(res1, bootfun, R = 500)   boot.ci(boot1, index = 2, type = c(\"perc\"), conf = 0.9)   ## Level     Percentile   ## 90  } # }"},{"path":"/reference/hessling.argentina.html","id":null,"dir":"Reference","previous_headings":"","what":"Relation between wheat yield and weather in Argentina — hessling.argentina","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"Relation wheat yield weather Argentina","code":""},{"path":"/reference/hessling.argentina.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"data frame 30 observations following 15 variables. yield average yield, kg/ha year year p05 precipitation (mm) May p06 precip June p07 precip July p08 precip August p09 precip Septempber p10 precip October p11 precip November p12 precip December t06 june temperature deviation normal, deg Celsius t07 july temp deviation t08 august temp deviation t09 september temp deviation t10 october temp deviation t11 november temp deviation","code":""},{"path":"/reference/hessling.argentina.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"Argentina wheat typically sown May August.  Harvest begins   November December.","code":""},{"path":"/reference/hessling.argentina.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"N. . Hessling, 1922.   Relations weather yield wheat   Argentine republic, Monthly Weather Review, 50, 302-308.   https://doi.org/10.1175/1520-0493(1922)50<302:RBTWAT>2.0.CO;2","code":""},{"path":"/reference/hessling.argentina.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Relation between wheat yield and weather in Argentina — hessling.argentina","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(hessling.argentina) dat <- hessling.argentina  # Fig 1 of Hessling.  Use avg Aug-Nov temp to predict yield dat <- transform(dat, avetmp=(t08+t09+t10+t11)/4) # Avg temp m0 <- lm(yield ~ avetmp, dat) plot(yield~year, dat, ylim=c(100,1500), type='l', main=\"hessling.argentina: observed (black) and predicted yield (blue)\") lines(fitted(m0)~year, dat, col=\"blue\")  # A modern, PLS approach libs(pls) yld <- dat[,\"yield\",drop=FALSE] yld <- as.matrix(sweep(yld, 2, colMeans(yld))) cov <- dat[,c(\"p06\",\"p07\",\"p08\",\"p09\",\"p10\",\"p11\", \"t08\",\"t09\",\"t10\",\"t11\")] cov <- as.matrix(scale(cov)) m2 <- plsr(yld~cov)  # biplot(m2, which=\"x\", var.axes=TRUE, main=\"hessling.argentina\")   libs(corrgram) corrgram(dat, main=\"hessling.argentina - correlations of yield and covariates\")  } # }"},{"path":"/reference/hildebrand.systems.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"Maize yields four cropping systems 14 -farm trials.","code":""},{"path":"/reference/hildebrand.systems.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"data frame 56 observations following 4 variables. village village, 2 levels farm farm, 14 levels system cropping system yield yield, t/ha","code":""},{"path":"/reference/hildebrand.systems.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"Yields 14 -farm trials Phalombe Project region   south-eastern Malawi.  farms located near two different   villages. farm, four different cropping systems tested.    systems :   LM = Local Maize, LMF = Local Maize Fertilizer,   CCA = Improved Composite, CCAF = Improved Composite Fertilizer.","code":""},{"path":"/reference/hildebrand.systems.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"P. E. Hildebrand, 1984.   Modified Stability Analysis Farmer Managed, -Farm Trials.   Agronomy Journal, 76, 271–274.   https://doi.org/10.2134/agronj1984.00021962007600020023x","code":""},{"path":"/reference/hildebrand.systems.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"H. P. Piepho, 1998.   Methods Comparing Yield Stability Cropping Systems.   Journal Agronomy Crop Science, 180, 193–213.   https://doi.org/10.1111/j.1439-037X.1998.tb00526.x","code":""},{"path":"/reference/hildebrand.systems.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize for four cropping systems — hildebrand.systems","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(hildebrand.systems)   dat <- hildebrand.systems    # Piepho 1998 Fig 1   libs(lattice)   dotplot(yield ~ system, dat, groups=village, auto.key=TRUE,           main=\"hildebrand.systems\", xlab=\"cropping system by village\")     # Plot of risk of 'failure' of System 2 vs System 1   s11 = .30;  s22 <- .92; s12 = .34   mu1 = 1.35; mu2 = 2.70   lambda <- seq(from=0, to=5, length=20)   system1 <- pnorm((lambda-mu1)/sqrt(s11))   system2 <- pnorm((lambda-mu2)/sqrt(s22))    # A simpler view   plot(lambda, system1, type=\"l\", xlim=c(0,5), ylim=c(0,1),        xlab=\"Yield level\", ylab=\"Prob(yield < level)\",        main=\"hildebrand.systems - risk of failure for each system\")   lines(lambda, system2, col=\"red\")      # Prob of system 1 outperforming system 2. Table 8   pnorm((mu1-mu2)/sqrt(s11+s22-2*s12))   # .0331    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)      # Environmental variance model, unstructured correlations        dat <- dat[order(dat$system, dat$farm),]     m1 <- asreml(yield ~ system, data=dat,                  resid = ~us(system):farm)          # Means, table 5     ## predict(m1, data=dat, classify=\"system\")$pvals     ##  system pred.value std.error  est.stat     ##     CCA      1.164    0.2816 Estimable     ##    CCAF      2.657    0.3747 Estimable     ##      LM      1.35     0.1463 Estimable     ##     LMF      2.7      0.2561 Estimable          # Variances, table 5     # lucid::vc(m1)[c(2,4,7,11),]     ##              effect component std.error z.ratio constr     ##    R!system.CCA:CCA    1.11      0.4354     2.5    pos     ##  R!system.CCAF:CCAF    1.966     0.771      2.5    pos     ##      R!system.LM:LM    0.2996    0.1175     2.5    pos     ##    R!system.LMF:LMF    0.9185    0.3603     2.5    pos          # Stability variance model     m2 <- asreml(yield ~ system, data=dat,                  random = ~ farm,                  resid = ~ dsum( ~ units|system))     m2 <- update(m2)     # predict(m2, data=dat, classify=\"system\")$pvals          ## # Variances, table 6     # lucid::vc(m2)     ##        effect component std.error z.ratio bound      ##          farm 0.2998      0.1187   2.5        P 0       ##  system_CCA!R 0.4133      0.1699   2.4        P 0       ## system_CCAF!R 1.265       0.5152   2.5        P 0       ##   system_LM!R 0.0003805   0.05538  0.0069     P 1.5     ##  system_LMF!R 0.5294      0.2295   2.3        P 0     }    } # }"},{"path":"/reference/holland.arthropods.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"Counts arthropods grid-sampled wheat field","code":""},{"path":"/reference/holland.arthropods.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"","code":"data(\"holland.arthropods\")"},{"path":"/reference/holland.arthropods.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"data frame 63 observations following 8 variables. row row col column n.brevicollis species counts linyphiidae species counts collembola species counts carabidae species counts lycosidae species counts weedcover percent weed cover","code":""},{"path":"/reference/holland.arthropods.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"Arthropods sampled 30m x 30m grid wheat field near   Wimborne, Dorest, UK 6 dates Jun/Jul 1996.  Arthropod counts   aggregated across 6 dates. Holland et al. used SADIE (Spatial Analysis Distance Indices)   look spatial patterns.  Significant patterns found   N. brevicollis, Carabidae, Lycosidae.  Lycosidae counts also   significantly associated weed cover. Used permission John Holland.","code":""},{"path":"/reference/holland.arthropods.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"Holland J. M., Perry J. N., Winder, L. (1999).   within-field spatial temporal distribution arthropods   within winter wheat.   Bulletin Entomological Research, 89: 499-513.  Figure 3 (large   grid 1996).   https://doi.org/10.1017/S0007485399000656","code":""},{"path":"/reference/holland.arthropods.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of arthropods in a grid-sampled wheat field — holland.arthropods","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(holland.arthropods) dat <- holland.arthropods     # use log count to make it possible to have same scale for insects   libs(reshape2, lattice)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   dat2 <- melt(dat, id.var=c('row','col'))   contourplot(log(value) ~ col*row|variable, dat2,               col.regions=grays(7), region=TRUE,               main=\"holland.arthropods - log counts in winter wheat\")   if(0){   # individual species   libs(lattice)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   contourplot(linyphiidae ~ col*row, dat, at=c(0,40,80,120,160,200), region=TRUE,               col.regions=grays(5),               main=\"holland.arthropods - linyphiidae counts in winter wheat\")   contourplot(n.brevicollis ~ col*row, dat, region=TRUE)   contourplot(linyphiidae~ col*row, dat, region=TRUE)   contourplot(collembola ~ col*row, dat, region=TRUE)   contourplot(carabidae ~ col*row, dat, region=TRUE)   contourplot(lycosidae ~ col*row, dat, region=TRUE)   contourplot(weedcover ~ col*row, dat, region=TRUE) }  } # }"},{"path":"/reference/holshouser.splitstrip.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-strip-plot of soybeans — holshouser.splitstrip","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"Split-strip-plot soybeans","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"data frame 160 observations following 8 variables. block block factor, 4 levels plot plot number cultivar cultivar factor, 4 levels spacing row spacing pop population (thousand per acre) yield yield row row col column","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"Within block, cultivars whole plots.  Withing whole plots,   spacing applied strips vertically, population applied   strips horizontally. Used permission David Holshouser Virginia Polytechnic.","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil Sciences   CRC Press, Boca Raton, FL.  Page 493.","code":""},{"path":"/reference/holshouser.splitstrip.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-strip-plot of soybeans — holshouser.splitstrip","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(holshouser.splitstrip) dat <- holshouser.splitstrip dat$spacing <- factor(dat$spacing) dat$pop <- factor(dat$pop)  # Experiment layout and field trends   libs(desplot)   desplot(dat, yield ~ col*row,           out1=block, # unknown aspect           main=\"holshouser.splitstrip\")   desplot(dat, spacing ~ col*row,           out1=block, out2=cultivar, # unknown aspect           col=cultivar, text=pop, cex=.8, shorten='none', col.regions=c('wheat','white'),           main=\"holshouser.splitstrip experiment design\")   # Overall main effects and interactions   libs(HH)   interaction2wt(yield~cultivar*spacing*pop, dat,                  x.between=0, y.between=0,                  main=\"holshouser.splitstrip\")     ## Schabenberger's SAS model, page 497   ## proc mixed data=splitstripplot;   ##   class block cultivar pop spacing;   ##   model yield = cultivar spacing spacing*cultivar pop pop*cultivar   ##                 spacing*pop spacing*pop*cultivar / ddfm=satterth;   ##   random block block*cultivar block*cultivar*spacing block*cultivar*pop;   ## run;       ## Now lme4. This design has five error terms--four are explicitly given.   libs(lme4)   libs(lucid)   m1 <- lmer(yield ~ cultivar * spacing * pop +                (1|block) + (1|block:cultivar) + (1|block:cultivar:spacing) +                (1|block:cultivar:pop), data=dat)   vc(m1) ## Variances match Schabenberger, page 498.   ##                    grp        var1 var2   vcov  sdcor   ##     block:cultivar:pop (Intercept) <NA> 2.421  1.556   ## block:cultivar:spacing (Intercept) <NA> 1.244  1.116   ##         block:cultivar (Intercept) <NA> 0.4523 0.6725   ##                  block (Intercept) <NA> 3.037  1.743   ##               Residual        <NA> <NA> 3.928  1.982    } # }"},{"path":"/reference/holtsmark.timothy.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of timothy — holtsmark.timothy.uniformity","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Uniformity trial timothy hay circa 1905","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"","code":"data(\"holtsmark.timothy.uniformity\")"},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"data frame 240 observations following 3 variables. row row col column yield yield per plot, kg","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Field width: 40 plots * 5 m = 200 m. Field length: 6 plots * 5 m = 30 m Holtsmark & Larsen used trial compare standard deviations   different sized plots (combined smaller plots).","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Holtsmark, G Larsen, BR (1905).   Om Muligheder indskraenke de Fejl, som ved Markforsog betinges af Jordens Uensartethed.   Tidsskrift Landbrugets Planteavl. 12, 330-351. (Danish)   Data page 347.   https://books.google.com/books?id=MdM0AQAAMAAJ&pg=PA330   https://dca.au.dk/publikationer/historiske/planteavl/ Uber die Fehler, welche bei Feldversuchen, durch die Ungleichartigkeit des Bodens bedingt werden.   Die Landwirtschaftlichen Versuchs-Stationen, 65, 1–22. (German)   https://books.google.com/books?id=eXA2AQAAMAAJ&pg=PA1","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"Theodor Roemer (1920).   Der Feldversuch. Page 67, table 11.","code":""},{"path":"/reference/holtsmark.timothy.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of timothy — holtsmark.timothy.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(holtsmark.timothy.uniformity) dat <- holtsmark.timothy.uniformity  # Define diagonal 'check' plots like Holtsmark does dat <- transform(dat,                  check = ifelse(floor((row+col)/3)==(row+col)/3, \"C\", \"\"))                   libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, text=check, show.key=FALSE,         aspect=30/200, # true aspect         main=\"holtsmark.timothy.uniformity\")  # sd(dat$yield) # 2.92 matches Holtsmark p. 348  } # }"},{"path":"/reference/huehn.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Multi-environment trial illustrate stability statistics","code":""},{"path":"/reference/huehn.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"","code":"data(\"huehn.wheat\")"},{"path":"/reference/huehn.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"data frame 200 observations following 3 variables. gen genotype env environment yield yield dt/ha","code":""},{"path":"/reference/huehn.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Yields winter-wheat trial 20 genotypes 10 environments. Note: Huehn 1979 use genotype-centered data calculating   stability statistics.","code":""},{"path":"/reference/huehn.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Manfred Huehn (1979).   Beitrage zur Erfassung der phanotypischen Stabilitat .   Vorschlag einiger auf Ranginformationen beruhenden Stabilitatsparameter.   EDV Medizin und Biologie, 10 (4), 112-117.  Table 1.   https://nbn-resolving.de/urn:nbn:de:bsz:15-qucosa-145979","code":""},{"path":"/reference/huehn.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"Nassar, R Huehn, M. (1987).   Studies estimation phenotypic stability: Tests significance   nonparametric measures phenotypic stability.   Biometrics, 43, 45-53.","code":""},{"path":"/reference/huehn.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat to illustrate stability statistics — huehn.wheat","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(huehn.wheat)   dat <- huehn.wheat      # Nassar & Huehn, p. 51 \"there is no evidence for differences in stability   # among the 20 varieties\".   libs(gge)   m1 <- gge(dat, yield ~ gen*env)   biplot(m1, main=\"huehn.wheat\")      libs(reshape2)   datm <- acast(dat, gen~env, value.var='yield')    apply(datm,1,mean) # Gen means match Huehn 1979 table 1   apply(datm,2,mean) # Env means   apply(datm, 2, rank) # Ranks match Huehn table 1    # Huehn 1979 did not use genotype-centered data, and his definition   # of S2 is different from later papers.    # I'm not sure where 'huehn' function is found   # apply(huehn(datm, corrected=FALSE), 2, round,2) # S1 matches Huehn   ##          MeanRank   S1   ## Jubilar      6.70 3.62   ## Diplomat     8.35 5.61   ## Caribo      11.20 6.07   ## Cbc710      13.65 6.70    # Very close match to Nassar & Huehn 1987 table 4.   # apply(huehn(datm, corrected=TRUE), 2, round,2)   ##          MeanRank   S1   Z1    S2   Z2   ## Jubilar      10.2 4.00 5.51 11.29 4.29   ## Diplomat     11.0 6.31 0.09 27.78 0.27   ## Caribo       10.6 6.98 0.08 34.49 0.01   ## Cbc710       10.9 8.16 1.78 47.21 1.73  } # }"},{"path":"/reference/hughes.grapes.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of grape, disease incidence — hughes.grapes","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"Disease incidence grape leaves RCB experiment 6 different   treatments.","code":""},{"path":"/reference/hughes.grapes.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"data frame 270 observations following 6 variables. block Block factor, 1-3 trt Treatment factor, 1-6 vine Vine factor, 1-3 shoot Shoot factor, 1-5 diseased Number diseased leaves per shoot total Number total leaves per shoot","code":""},{"path":"/reference/hughes.grapes.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"data come study downy mildew grapes.    experiment conducted Wooster, Ohio, experimental farm   Ohio Agricultural Research Development Center, Ohio State   University. 3 blocks 6 treatments.  Treatment 1   unsprayed control.  30 Sep 1990, disease incidence   measured.  plot, 5 randomly chosen shoots 3   vines observed.  canopy closed shoots   intertwined.  shoot, total number leaves number   infected leaves recorded. Used permission Larry Madden.","code":""},{"path":"/reference/hughes.grapes.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"Hughes, G. Madden, LV. 1995.   methods allowing aggregated patterns disease incidence   analysis data designed experiments.   Plant Pathology, 44, 927–943.   https://doi.org/10.1111/j.1365-3059.1995.tb02651.x","code":""},{"path":"/reference/hughes.grapes.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"Hans-Pieter Piepho. 1999.   Analysing disease incidence data designed experiments   generalized linear mixed models.   Plant Pathology, 48, 668–684.   https://doi.org/10.1046/j.1365-3059.1999.00383.x","code":""},{"path":"/reference/hughes.grapes.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of grape, disease incidence — hughes.grapes","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(hughes.grapes) dat <- hughes.grapes  dat <- transform(dat, rate = diseased/total, plot=trt:block)    # Trt 1 has higher rate, more variable, Trt 3 lower rate, less variable   libs(lattice)   foo <- bwplot(rate ~ vine|block*trt, dat, main=\"hughes.grapes\",                 xlab=\"vine\")   libs(latticeExtra)   useOuterStrips(foo)     # Table 1 of Piepho 1999   tapply(dat$rate, dat$trt, mean) # trt 1 does not match Piepho   tapply(dat$rate, dat$trt, max)     # Piepho model 3.  Binomial data.  May not be exactly the same model      # Use the binomial count data with lme4   libs(lme4)   m1 <- glmer(cbind(diseased, total-diseased) ~ trt + block + (1|plot/vine),               data=dat, family=binomial)   m1    # Switch from binomial counts to bernoulli data   libs(aod)   bdat <- splitbin(cbind(diseased, total-diseased) ~ block+trt+plot+vine+shoot,                    data=dat)$tab   names(bdat)[2] <- 'y'      # Using lme4   m2 <- glmer(y ~ trt + block + (1|plot/vine), data=bdat, family=binomial)   m2      # Now using MASS:::glmmPQL   libs(MASS)   m3 <- glmmPQL(y ~ trt + block, data=bdat,                 random=~1|plot/vine, family=binomial)   m3  } # }"},{"path":"/reference/hunter.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"Corn yield response nitrogen","code":""},{"path":"/reference/hunter.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"data frame 54 observations following 4 variables. nitro nitrogen fertilizer, pound/acre year year loc location yield yield, bu/ac","code":""},{"path":"/reference/hunter.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"Experiments conducted eastern Oregon years   1950-1952. Planting rates varied 15,000 21,000 planter per acre.","code":""},{"path":"/reference/hunter.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"Albert S. Hunter, John . Yungen (1955).  Influence   Variations Fertility Levels Upon Yield Protein   Content Field Corn Eastern Oregon.   Soil Science Society America Journal, 19, 214-218.   https://doi.org/10.2136/sssaj1955.03615995001900020027x","code":""},{"path":"/reference/hunter.corn.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"James Leo Paschal, Burton Leroy French (1956).   method economic analysis applied nitrogen fertilizer rate   experiments irrigated corn.   Tech Bull 1141. United States Dept Agriculture.   books.google.com/books?id=gAdZtsEziCcC&pg=PP1","code":""},{"path":"/reference/hunter.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn with nitrogen fertilizer — hunter.corn","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(hunter.corn) dat <- hunter.corn  dat <- transform(dat, env=factor(paste(loc,year)))  libs(lattice) xyplot(yield~nitro|env, dat, type='b', main=\"hunter.corn - nitrogen response curves\")  } # }"},{"path":"/reference/hutchinson.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — hutchinson.cotton.uniformity","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"Uniformity trial cotton harvested 1941","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"","code":"data(\"hutchinson.cotton.uniformity\")"},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"data frame 2000 observations following 3 variables. row row ordinate col column ordinate yield yield per plant, grams","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"data lint yield single plants cotton uniformity   trial St. Vincent 1940-41. experiment planted 50 rows   40 plants row. spacing 1.5 feet within rows 4   feet rows. Field length: 40 plants * 1.5 feet = 60 feet Field width: 50 columns * 4 feet = 200 feet data made available special help staff   Rothamsted Research Library. Rothamsted library scanned paper documents pdf.   K.Wright used pdf manually type values Excel file   immediately checked hand-typed values. Plants marked \"Dead\"   PDF left blank. 6 numbers illegible   PDF. also left blank.","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 2.","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":". C. Brewer R. Mead (1986).   Continuous Second Order Models Spatial Variation Application Efficiency Field Crop Experiments.   Journal Royal Statistical Society. Series (General), 149(4), 314–348.  See page 325.   http://doi.org/10.2307/2981720","code":""},{"path":"/reference/hutchinson.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — hutchinson.cotton.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(hutchinson.cotton.uniformity)   dat <- hutchinson.cotton.uniformity      require(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, flip=TRUE, aspect=(40*1.5)/(50*4), # true aspect           main=\"hutchinson.cotton.uniformity\") } # }"},{"path":"/reference/igue.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"Uniformity trial sugarcane Brazil, 1982.","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"","code":"data(\"igue.sugarcane.uniformity\")"},{"path":"/reference/igue.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"data frame 1512 observations following 3 variables. row row col column yield yield, kg/plot","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"uniformity trial sugarcane state Sao Paulo, Brazil, 1982.   field 40 rows, 90 m long, 1.5 m rows. Field width: 36 plots * 1.5 m = 54 m Field length: 42 plots * 2 m = 84 m","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"Toshio Igue, Ademar Espironelo, Heitor Cantarella, Erseni Joao Nelli. (1991).   Tamanho e forma de parcela experimental para cana-de-acucar (Plot size shape sugar cane experiments).   Bragantia, 50, 163-180. Appendix, page 169-170.   https://dx.doi.org/10.1590/S0006-87051991000100016","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"None","code":""},{"path":"/reference/igue.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial with sugarcane — igue.sugarcane.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(igue.sugarcane.uniformity) dat <- igue.sugarcane.uniformity  # match Igue CV top row of page 171 sd(dat$yield)/mean(dat$yield) # 16.4  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, tick=TRUE, aspect=(42*2)/(36*1.5),         main=\"igue.sugarcane.uniformity\")    } # }"},{"path":"/reference/ilri.sheep.html","id":null,"dir":"Reference","previous_headings":"","what":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Birth weight weaning weight 882 lambs partial diallel   cross Dorper Red Maasi breeds.","code":""},{"path":"/reference/ilri.sheep.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"data frame 882 observations following 12 variables. year year lamb birth, 1991-1996 lamb lamb id sex sex lamb, M=Male/F=Female gen genotype, DD, DR, RD, RR birthwt weight lamb birth, kg weanwt weight lamb weaning, kg weanage age lamb weaning, days ewe ewe id ewegen ewe genotype: D, R damage ewe (dam) age years ram ram id ramgen ram genotype: D, R","code":""},{"path":"/reference/ilri.sheep.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Red Maasai sheep East Africa perceived resistant   certain parasites.  ILRI decided 1990 investigate degree   resistance exhibited Red Maasai breed initiated study   Kenya. susceptible breed, Dorper,   chosen provide direct comparison Red Maasai.   Dorper well-adapted area also larger Red   Maasai, makes sheep attractive farmers. Throughout six years 1991 1996 Dorper (D), Red Maasai (R)   Red Maasai x Dorper crossed ewes mated Red Maasai Dorper   rams produce number different lamb genotypes. purposes   example, following four offspring genotypes   considered (Sire x Dam): D x D, D x R, R x D R x R. Records missing 182 lambs, mostly earlier death.","code":""},{"path":"/reference/ilri.sheep.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Mixed model analysis estimation components genetic   variation lamb weaning weight. International Livestock Research Institute.   Permanent link: https://hdl.handle.net/10568/10364   https://biometrics.ilri.org/CS/case   Retrieved Dec 2011. Used via license: Creative Commons -NC-SA 3.0.","code":""},{"path":"/reference/ilri.sheep.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"Baker, RL Nagda, S. Rodriguez-Zas, SL Southey, BR   Audho, JO Aduda, EO Thorpe, W. (2003).   Resistance resilience gastro-intestinal nematode parasites   relationships productivity Red Maasai, Dorper Red Maasai x   Dorper crossbred lambs sub-humid tropics.   Animal Science, 76, 119-136.   https://doi.org/10.1017/S1357729800053388 Gota Morota, Hao Cheng, Dianne Cook, Emi Tanaka (2021).   ASAS-NANP SYMPOSIUM: prospects interactive dynamic graphics   era data-rich animal science.   Journal Animal Science, Volume 99, Issue 2, February 2021, skaa402.   https://doi.org/10.1093/jas/skaa402","code":""},{"path":"/reference/ilri.sheep.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Birth weight and weaning weight of Dorper x Red Maasi lambs — ilri.sheep","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(ilri.sheep)   dat <- ilri.sheep   dat <- transform(dat, lamb=factor(lamb), ewe=factor(ewe), ram=factor(ram),                    year=factor(year))   # dl is linear covariate, same as damage, but truncated to [2,8]   dat <- within(dat, {     dl <- damage     dl <- ifelse(dl < 3, 2, dl)     dl <- ifelse(dl > 7, 8, dl)     dq <- dl^2   })    dat <- subset(dat, !is.na(weanage))    # EDA   libs(lattice)   ## bwplot(weanwt ~ year, dat, main=\"ilri.sheep\", xlab=\"year\", ylab=\"Wean weight\",   ##        panel=panel.violin) # Year effect   bwplot(weanwt ~ factor(dl), dat,          main=\"ilri.sheep\", xlab=\"Dam age\", ylab=\"Wean weight\") # Dam age effect   # bwplot(weanwt ~ gen, dat,   #        main=\"ilri.sheep\", xlab=\"Genotype\", ylab=\"Wean weight\") # Genotype differences   xyplot(weanwt ~ weanage, dat, type=c('p','smooth'),          main=\"ilri.sheep\", xlab=\"Wean age\", ylab=\"Wean weight\") # Age covariate    # case study page 4.18   lm1 <- lm(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen, data=dat)   summary(lm1)   anova(lm1)    # ----------    libs(lme4)   lme1 <- lmer(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen +                  (1|ewe) + (1|ram), data=dat)   print(lme1, corr=FALSE)   lme2 <- lmer(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen +                  (1|ewe), data=dat)   lme3 <- lmer(weanwt ~ year + sex + weanage + dl + dq + ewegen + ramgen +                  (1|ram), data=dat)   anova(lme1, lme2,  lme3)    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     # case study page 4.20     m1 <- asreml(weanwt ~ year + sex + weanage + dl + dq + ramgen + ewegen,                  data=dat)     # wald(m1)        # case study page 4.26     m2 <- asreml(weanwt ~ year + sex + weanage + dl + dq + ramgen + ewegen,                  random = ~ ram + ewe, data=dat)     # wald(m2)          # case study page 4.37, year means     # predict(m2, data=dat, classify=\"year\")     ##   year predicted.value standard.error est.status     ## 1   91       12.638564      0.2363652  Estimable     ## 2   92       11.067659      0.2285252  Estimable     ## 3   93       11.561932      0.1809891  Estimable     ## 4   94        9.636058      0.2505478  Estimable     ## 5   95        9.350247      0.2346849  Estimable     ## 6   96       10.188482      0.2755387  Estimable   }    } # }"},{"path":"/reference/immer.sugarbeet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"Uniformity trial sugarbeets, Minnesota, 1930, measurements   yield, sugar, purity.","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"data frame 600 observations following 5 variables. year year experiment row row col column yield yield, pounds per plot sugar sugar percentage purity apparent purity","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"1930 Experiment Beets planted rows 22 inches apart, thinned 1 plant per   row. harvest, rows marked segments 33 feet long   2 foot alleys ends plots.  harvested area 60 rows   350 feet long. Field width: 10 plots * 33 feet + 9 alleys * 2 feet = 348 feet Field length: 60 plots/rows * 22 /row / 12 /feet = 110 feet Planted 1930.  Field conditions uniform.  Beets planted   rows 22 inches apart.  thinning, one beet left   12-inch unit.  harvest, field marked plot 33 feet   long, 2-foot alley plots minimize carryover   harvester.  sample 10 beets taken uniformly (approximately   every third beet) measured sugar percentage apparent   purity.  beets counted weighing time yields   calculated basis 33 beets per plot. Immer found aggregating data one row two   resulted dramatic reduction standard error (yield). ———- 1931 Experiment Planted 13 May 1931. Field layout previous year.   Unclear land used. Field width: 10 plots * 33 feet + 9 alleys * 2 feet = 348 feet Field length: 60 plots * 22 inches/row / 12 /feet = 110 feet data experiment published Immer (1933),   deposited Rothamsted. data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"Immer, F. R. (1932).   Size shape plot relation field experiments sugar beets.   Journal Agricultural Research, 44, 649-668.   https://naldc.nal.usda.gov/download/IND43968078/PDF Immer, F. R. S. M. Raleigh (1933).   studies size shape plot relation field experiments sugar beets.   Journal Agricultural Research, 47, 591-598.   https://naldc.nal.usda.gov/download/IND43968370/PDF   Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/immer.sugarbeet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugarbeets, measurements of yield, sugar, purity — immer.sugarbeet.uniformity","text":"","code":"library(agridat)    data(immer.sugarbeet.uniformity)   dat <- immer.sugarbeet.uniformity    # Immer numbers rows from the top   libs(desplot)   # Similar to Immer (1932) figure 2   desplot(dat, yield~col*row, subset=year==1930,           aspect=110/348, tick=TRUE, flip=TRUE, # true aspect           main=\"immer.sugarbeet.uniformity - 1930 yield\")    # Similar to Immer (1932) figure 3   desplot(dat, sugar~col*row, subset=year==1930,           aspect=110/348, tick=TRUE, flip=TRUE,           main=\"immer.sugarbeet.uniformity - 1930 sugar\")    # Similar to Immer (1932) figure 4   desplot(dat, purity~col*row, subset=year==1930,           aspect=110/348, tick=TRUE, flip=TRUE,           main=\"immer.sugarbeet.uniformity - 1930 purity\")     pairs(dat[,c('yield','sugar','purity')],         main=\"immer.sugarbeet.uniformity\")     # Similar to Immer (1933) figure 1   desplot(dat, yield~col*row, subset=year==1931,           aspect=110/348, tick=TRUE, flip=TRUE, # true aspect           main=\"immer.sugarbeet.uniformity - 1931 yield\")"},{"path":"/reference/ivins.herbs.html","id":null,"dir":"Reference","previous_headings":"","what":"Percent ground cover of herbage species and nettles. — ivins.herbs","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"Percent ground cover herbage species nettles.","code":""},{"path":"/reference/ivins.herbs.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"data frame 78 observations following 4 variables. block block, 6 levels gen genotype, 13 levels nettle percent ground cover nettles herb percent ground cover herbage species","code":""},{"path":"/reference/ivins.herbs.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"University Nottingham farm, 13 different strains species   herbage plants sown 4 acres RCB design.    grass species sown together white clover seed. establishment herbage plants, became apparent   Urtica dioica (nettle) became established according   particular herbage plant plot.  particular, nettle became   established plots sown leguminous species two grass   species.  graminaceous plots less nettles. data percentage ground cover nettle herbage   plants September 1951. Note, percent ground cover amounts originally   reported 'trace'. arbitrarily set 0.1   data.","code":""},{"path":"/reference/ivins.herbs.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"Ivins, JD. (1952).   Concerning Ecology Urtica Dioica L.,   Journal Ecology, 40, 380-382.   https://doi.org/10.2307/2256806","code":""},{"path":"/reference/ivins.herbs.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"Ivins, JD (1950). Weeds relation establishment Ley.   Grass Forage Science, 5, 237–242.   https://doi.org/10.1111/j.1365-2494.1950.tb01287.x O'Gorman, T.W. (2001). comparison F-test, Friedman's test,   several aligned rank tests analysis randomized complete   blocks.   Journal agricultural, biological, environmental     statistics, 6, 367–378.   https://doi.org/10.1198/108571101317096578","code":""},{"path":"/reference/ivins.herbs.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Percent ground cover of herbage species and nettles. — ivins.herbs","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(ivins.herbs) dat <- ivins.herbs  # Nettle is primarily established in legumes. libs(lattice) xyplot(herb~nettle|gen, dat, main=\"ivins.herbs - herb yield vs weeds\",        xlab=\"Percent groundcover in nettles\",        ylab=\"Percent groundcover in herbs\")  # O'Brien used first 7 species to test gen differences dat7 <- droplevels(subset(dat, is.element(gen, c('G01','G02','G03','G04','G05','G06','G07')))) m1 <- lm(herb ~ gen + block, data=dat7) anova(m1) # gen p-value is .041 ## Response: herb ##           Df  Sum Sq Mean Sq F value  Pr(>F) ## gen        6 1083.24 180.540  2.5518 0.04072 * ## block      5  590.69 118.138  1.6698 0.17236 ## Residuals 30 2122.48  70.749  friedman.test(herb ~ gen|block, dat7) # gen p-value .056  } # }"},{"path":"/reference/iyer.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of wheat in India — iyer.wheat.uniformity","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"Uniformity trials wheat India.","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"","code":"data(\"iyer.wheat.uniformity\")"},{"path":"/reference/iyer.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"data frame 2000 observations following 3 variables. row row col column yield yield, ounces per plot","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"Data collected Agricultural Sub-station Karnal, India,   April 1978. net area 400 ft x 125 ft harvested dividing   80x25 units 5 ft x 5 ft eliminating minimum border 3.5   ft around net area. Field width: 80 plots * 5 feet = 400 feet Field length: 25 rows * 5 feet = 125 feet second paper, Iyer used data compare random vs. balanced   arrangements treatments plots, conclusion   \"difficult say [method] better. However,   tendency randomized arrangements give accurate results.\"","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"P. V. Krishna Iyer (1942).   Studies wheat uniformity trial data. . Size shape   experimental plots relative efficiency different layouts.   Indian Journal Agricultural Science, 12, 240-262. Page 259-262.    https://archive.org/stream/.ernet.dli.2015.7638/2015.7638.-Indian-Journal--Agricultural-Science-Vol-xii-1942#page/n267/mode/2up","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"None.","code":""},{"path":"/reference/iyer.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of wheat in India — iyer.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(iyer.wheat.uniformity) dat <- iyer.wheat.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         main=\"iyer.wheat.uniformity\", tick=TRUE,          aspect=(25*5)/(80*5)) # true aspect  # not exactly the same as Iyer table 1, p. 241 var(subset(dat, col <= 20)$yield) var(subset(dat, col > 20 & col <= 40)$yield) var(subset(dat, col > 40 & col <= 60)$yield) var(subset(dat, col > 60)$yield)    # cv for 1x1 whole-field # sd(dat$yield)/mean(dat$yield) # 18.3  } # }"},{"path":"/reference/jansen.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Infestation of apple shoots by apple canker. — jansen.apple","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"Infestation apple shoots apple canker.","code":""},{"path":"/reference/jansen.apple.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"","code":"data(\"jansen.apple\")"},{"path":"/reference/jansen.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"data frame 36 observations following 5 variables. inoculum inoculum level gen genotype/variety block block y number inoculations developing canker n number inoculations","code":""},{"path":"/reference/jansen.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"Shoots apple trees infected fungus Nectria     galligena, may cause apple canker. incoulum density treatment 3 levels, measured macroconidia   per ml. 4 blocks. Used permission J. Jansen. Electronic version supplied Miroslav Zoric.","code":""},{"path":"/reference/jansen.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"J. Jansen & J.. Hoekstra (1993).   analysis proportions agricultural experiments   generalized linear mixed model.   Statistica Neerlandica, 47(3), 161-174.   https://doi.org/10.1111/j.1467-9574.1993.tb01414.x","code":""},{"path":"/reference/jansen.apple.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"None.","code":""},{"path":"/reference/jansen.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Infestation of apple shoots by apple canker. — jansen.apple","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(jansen.apple) dat <- jansen.apple  libs(lattice) xyplot(inoculum ~ y/n|gen, data=dat, group=block,        layout=c(3,1),        main=\"jansen.apple\",        xlab=\"Proportion infected per block/inoculum\",        ylab=\"Inoculum level\")  ## libs(lme4) ## # Tentative model.  Needs improvement. ## m1 <- glmer(cbind(y,n-y) ~ gen + factor(inoculum) + (1|block), ##             data=dat, family=binomial) ## summary(m1)  } # }"},{"path":"/reference/jansen.carrot.html","id":null,"dir":"Reference","previous_headings":"","what":"Infestation of carrots by fly larvae — jansen.carrot","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"Infestation 16 carrot genotypes fly larvae, comparing 2   treatments 16 blocks.","code":""},{"path":"/reference/jansen.carrot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"","code":"data(\"jansen.carrot\")"},{"path":"/reference/jansen.carrot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"data frame 96 observations following 5 variables. trt treatment gen genotype block block n number carrots sampled per plot y number carrots infested per plot","code":""},{"path":"/reference/jansen.carrot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"experiment designed compare different genotypes carrots   respect resistance infestation larvae   carrotfly. 16 genotypes, 2 levels pest-control treatments, conducted   3 randomized complete blocks.  50 carrots sampled   plot evaluated.  data show number carrots   number infested fly larvae. Used permission J. Jansen. Electronic version supplied Miroslav Zoric.","code":""},{"path":"/reference/jansen.carrot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"J. Jansen & J.. Hoekstra (1993).   analysis proportions agricultural experiments   generalized linear mixed model.   Statistica Neerlandica, 47(3), 161-174.   https://doi.org/10.1111/j.1467-9574.1993.tb01414.x","code":""},{"path":"/reference/jansen.carrot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"None.","code":""},{"path":"/reference/jansen.carrot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Infestation of carrots by fly larvae — jansen.carrot","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(jansen.carrot) dat <- jansen.carrot  libs(lattice) dotplot(gen ~ y/n, data=dat, group=trt, auto.key=TRUE,         main=\"jansen.carrot\",         xlab=\"Proportion of carrots infected per block\", ylab=\"Genotype\")    # Not run because CRAN wants < 5 seconds per example.  This is close.   libs(lme4)   # Tentative model.  Needs improvement.   m1 <- glmer(cbind(y,n-y) ~ gen*trt + (1|block),               data=dat, family=binomial)   summary(m1)   # Todo: Why are these results different from Jansen?   # Maybe he used ungrouped bernoulli data?  Too slow with 4700 obs   } # }"},{"path":"/reference/jansen.strawberry.html","id":null,"dir":"Reference","previous_headings":"","what":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"Ordered disease ratings strawberry crosses.","code":""},{"path":"/reference/jansen.strawberry.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"","code":"data(\"jansen.strawberry\")"},{"path":"/reference/jansen.strawberry.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"data frame 144 observations following 5 variables. male male parent female female parent block block category disease damage, C1 < C2 < C3 count number plants category","code":""},{"path":"/reference/jansen.strawberry.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"strawberries, red core disease caused fungus,   Phytophtora fragariae.  experiment evaluated different   populations damage caused red core disease. 3 male strawberry plants 4 DIFFERENT female strawberry   plants crossed create 12 populations.   Note: Jansen labeled male parents 1,2,3 female parents   1,2,3,4.  reduce confusion, data labels female parents 5,6,7,8. experiment four blocks 12 plots (one   population).  Plots usually 10 plants, plots 9   plants.  plant assessed damage fungus rated   belonging category C1, C2, C3 (increasing damage). Used permission Hans Jansen.","code":""},{"path":"/reference/jansen.strawberry.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"J. Jansen, 1990.   statistical analysis ordinal data extravariation present.   Applied Statistics, 39, 75-84, Table 1.   https://doi.org/10.2307/2347813","code":""},{"path":"/reference/jansen.strawberry.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Ordered disease ratings of strawberry crosses. — jansen.strawberry","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(jansen.strawberry) dat <- jansen.strawberry dat <- transform(dat, category=ordered(category, levels=c('C1','C2','C3')))  dtab <- xtabs(count ~ male + female + category, data=dat) ftable(dtab)  mosaicplot(dtab,            color=c(\"lemonchiffon1\",\"lightsalmon1\",\"indianred\"),            main=\"jansen.strawberry disease ratings\",            xlab=\"Male parent\", ylab=\"Female parent\")  libs(MASS,vcd) # Friendly suggests a minimal model is [MF][C] # m1 <- loglm( ~ 1*2 + 3, dtab) # Fails, only with devtools # mosaic(m1)  } # }"},{"path":"/reference/jayaraman.bamboo.html","id":null,"dir":"Reference","previous_headings":"","what":"Bamboo progeny trial — jayaraman.bamboo","title":"Bamboo progeny trial — jayaraman.bamboo","text":"Bamboo progeny trial 2 locations, 3 blocks","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Bamboo progeny trial — jayaraman.bamboo","text":"","code":"data(\"jayaraman.bamboo\")"},{"path":"/reference/jayaraman.bamboo.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Bamboo progeny trial — jayaraman.bamboo","text":"data frame 216 observations following 5 variables. loc location factor block block factor tree tree factor family family factor height height, cm","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Bamboo progeny trial — jayaraman.bamboo","text":"Data replicated trial bamboo two locations Kerala,   India.  location 3 blocks.  block 6 families,   6 trees family.","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Bamboo progeny trial — jayaraman.bamboo","text":"K. Jayaraman (1999). \"Statistical Manual Forestry Research\".   Forestry Research Support Programme Asia Pacific. Page 170.","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Bamboo progeny trial — jayaraman.bamboo","text":"None","code":""},{"path":"/reference/jayaraman.bamboo.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Bamboo progeny trial — jayaraman.bamboo","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(jayaraman.bamboo)   dat <- jayaraman.bamboo    # very surprising differences between locations   libs(lattice)   bwplot(height ~ family|loc, dat, main=\"jayaraman.bamboo\")   # match Jayarman's anova table 6.3, page 173   # m1 <- aov(height ~ loc+loc:block + family + family:loc +   #  family:loc:block, data=dat)   # anova(m1)    # more modern approach with mixed model, match variance components needed   # for equation 6.9, heritability of the half-sib averages as   m2 <- lme4::lmer(height ~ 1 + (1|loc/block) + (1|family/loc/block), data=dat)   lucid::vc(m2) } # }"},{"path":"/reference/jegorow.oats.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Uniformity trial oats Russia","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"","code":"data(\"jegorow.oats.uniformity\")"},{"path":"/reference/jegorow.oats.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"data frame 240 observations following 3 variables. row row ordinate col column ordinate yield yield per plot, kg","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Sumskaya (Ssumy?) agricultural experimental station (Kharkov   Governorate), field planted April 1908 harvested   summer plots 1 sazhen sqauare.  'sazhen' 7 feet. Field width: 8 plots * 1 sazhen Field length: 30 plots * 1 sazhen Data typed K.Wright Roemer (1920), table 10.","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Jegorow, M. (1909).   Zur Methodik des feldversuches.   Russian Journ Expt Agric, 10, 502-520.   uniformity trial oats.   https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/510jAQAAIAAJ?hl=en","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180. Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/jegorow.oats.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oats in Russia — jegorow.oats.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)      data(jegorow.oats.uniformity)   dat <- jegorow.oats.uniformity      mean(dat$yield) # Jegorow reports 2.03    libs(desplot)   desplot(dat, yield~col*row,            aspect=10/24, flip=TRUE, tick=TRUE,           main=\"jegorow.oats.uniformity\") } # }"},{"path":"/reference/jenkyn.mildew.html","id":null,"dir":"Reference","previous_headings":"","what":"Yields from treatment for mildew control — jenkyn.mildew","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"Yields treatment mildew control","code":""},{"path":"/reference/jenkyn.mildew.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"data frame 38 observations following 4 variables. plot plot number trt treatment factor, 4 levels block block factor, 9 levels yield grain yield, tons/ha","code":""},{"path":"/reference/jenkyn.mildew.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"four spray treatments: 0 (none), 1 (early), 2 (late), R   (repeated). treatment occurs 9 ordered pairs   treatments. first last plot assigned block.","code":""},{"path":"/reference/jenkyn.mildew.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"Norman Draper Irwin Guttman (1980).   Incorporating Overlap Effects Neighboring Units Response   Surface Models.   Appl Statist, 29, 128–134.   https://doi.org/10.2307/2986297","code":""},{"path":"/reference/jenkyn.mildew.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"Maria Durban, Christine Hackett, Iain Currie.   Blocks, Trend Interference Field Trials.","code":""},{"path":"/reference/jenkyn.mildew.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yields from treatment for mildew control — jenkyn.mildew","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(jenkyn.mildew) dat <- jenkyn.mildew  libs(lattice) bwplot(yield ~ trt, dat, main=\"jenkyn.mildew\", xlab=\"Treatment\")  # Residuals from treatment model show obvious spatial trends m0 <- lm(yield ~ trt, dat) xyplot(resid(m0)~plot, dat, ylab=\"Residual\",        main=\"jenkyn.mildew - treatment model\")  # The blocks explain most of the variation m1 <- lm(yield ~ trt + block, dat) xyplot(resid(m1)~plot, dat, ylab=\"Residual\",        main=\"jenkyn.mildew - block model\")  } # }"},{"path":"/reference/john.alpha.html","id":null,"dir":"Reference","previous_headings":"","what":"Alpha lattice design of spring oats — john.alpha","title":"Alpha lattice design of spring oats — john.alpha","text":"Alpha lattice design spring oats","code":""},{"path":"/reference/john.alpha.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Alpha lattice design of spring oats — john.alpha","text":"data frame 72 observations following 5 variables. plot plot number rep replicate block incomplete block gen genotype (variety) yield dry matter yield (tonnes/ha) row Row ordinate col Column ordinate","code":""},{"path":"/reference/john.alpha.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Alpha lattice design of spring oats — john.alpha","text":"spring oats trial grown Craibstone, near Aberdeen.  24   varieties 3 replicates, consisting 6 incomplete blocks 4   plots.  Planted resolvable alpha design. Caution: Note table page 146 John & Williams (1995)   physical layout.  plots laid single line.","code":""},{"path":"/reference/john.alpha.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Alpha lattice design of spring oats — john.alpha","text":"J. . John & E. R. Williams (1995).   Cyclic computer generated designs.   Chapman Hall, London.  Page 146.","code":""},{"path":"/reference/john.alpha.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Alpha lattice design of spring oats — john.alpha","text":"Piepho, H.P. Mohring, J. (2007),   Computing heritability selection response unbalanced   plant breeding trials.   Genetics, 177, 1881-1888.   https://doi.org/10.1534/genetics.107.074229 Paul Schmidt, Jens Hartung, Jörn Bennewitz, Hans-Peter Piepho   (2019).   Heritability Plant Breeding Genotype-Difference Basis.   Genetics, 212, 991-1008.   https://doi.org/10.1534/genetics.119.302134","code":""},{"path":"/reference/john.alpha.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Alpha lattice design of spring oats — john.alpha","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(john.alpha)   dat <- john.alpha      # RCB (no incomplete block)   m0 <- lm(yield ~ 0 + gen + rep, data=dat)    # Block fixed (intra-block analysis) (bottom of table 7.4 in John)   m1 <- lm(yield ~ 0 + gen + rep + rep:block, dat)   anova(m1)    # Block random (combined inter-intra block analysis)   libs(lme4, lucid)   m2 <- lmer(yield ~ 0 + gen + rep + (1|rep:block), dat)    anova(m2)   ## Analysis of Variance Table   ##     Df Sum Sq Mean Sq  F value   ## gen 24 380.43 15.8513 185.9942   ## rep  2   1.57  0.7851   9.2123   vc(m2)   ##        grp        var1 var2    vcov  sdcor   ##  rep:block (Intercept) <NA> 0.06194 0.2489   ##   Residual        <NA> <NA> 0.08523 0.2919     # Variety means.  John and Williams table 7.5.  Slight, constant   # difference for each method as compared to John and Williams.   means <- data.frame(rcb=coef(m0)[1:24],                       ib=coef(m1)[1:24],                       intra=fixef(m2)[1:24])   head(means)   ##             rcb       ib    intra   ## genG01 5.201233 5.268742 5.146433   ## genG02 4.552933 4.665389 4.517265   ## genG03 3.381800 3.803790 3.537934   ## genG04 4.439400 4.728175 4.528828   ## genG05 5.103100 5.225708 5.075944   ## genG06 4.749067 4.618234 4.575394      libs(lattice)   splom(means, main=\"john.alpha - means for RCB, IB, Intra-block\")       # ----------   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)    # Heritability calculation of Piepho & Mohring, Example 1          m3 <- asreml(yield ~ 1 + rep, data=dat, random=~ gen + rep:block)     sg2 <- summary(m3)$varcomp['gen','component'] # .142902          # Average variance of a difference of two adjusted means (BLUP)          p3 <- predict(m3, data=dat, classify=\"gen\", sed=TRUE)     # Matrix of pair-wise SED values, squared     vdiff <- p3$sed^2     # Average variance of two DIFFERENT means (using lower triangular of vdiff)     vblup <- mean(vdiff[lower.tri(vdiff)]) # .05455038          # Note that without sed=TRUE, asreml reports square root of the average variance     # of a difference between the variety means, so the following gives the same value     # predict(m3, data=dat, classify=\"gen\")$avsed ^ 2 # .05455038          # Average variance of a difference of two adjusted means (BLUE)     m4 <- asreml(yield ~ 1 + gen + rep, data=dat, random = ~ rep:block)     p4 <- predict(m4, data=dat, classify=\"gen\", sed=TRUE)     vdiff <- p4$sed^2     vblue <- mean(vdiff[lower.tri(vdiff)]) # .07010875     # Again, could use predict(m4, data=dat, classify=\"gen\")$avsed ^ 2          # H^2 Ad-hoc measure of heritability     sg2 / (sg2 + vblue/2) # .803          # H^2c Similar measure proposed by Cullis.     1-(vblup / (2*sg2)) # .809   }    # ----------   # lme4 to calculate Cullis H2   # https://stackoverflow.com/questions/38697477      libs(lme4)      cov2sed <- function(x){     # Convert var-cov matrix to SED matrix     # sed[i,j] = sqrt( x[i,i] + x[j,j]- 2*x[i,j] )     n <- nrow(x)     vars <- diag(x)     sed <- sqrt( matrix(vars, n, n, byrow=TRUE) +                    matrix(vars, n, n, byrow=FALSE) - 2*x )     diag(sed) <- 0     return(sed)   }      # Same as asreml model m4. Note 'gen' must be first term   m5blue <- lmer(yield ~ 0 + gen + rep + (1|rep:block), dat)      libs(emmeans)   ls5blue <- emmeans(m5blue, \"gen\")   con <- ls5blue@linfct[,1:24] # contrast matrix for genotypes   # The 'con' matrix is identity diagonal, so we don't need to multiply,   # but do so for a generic approach   # sed5blue <- cov2sed(con    tmp <- tcrossprod( crossprod(t(con), vcov(m5blue)[1:24,1:24]), con)   sed5blue <- cov2sed(tmp)       # vblue Average variance of difference between genotypes   vblue <- mean(sed5blue[upper.tri(sed5blue)]^2)   vblue # .07010875 matches 'vblue' from asreml      # Now blups   m5blup <- lmer(yield ~ 0 + (1|gen) + rep + (1|rep:block), dat)   # Need lme4::ranef in case ordinal is loaded   re5 <- lme4::ranef(m5blup,condVar=TRUE)   vv1 <- attr(re5$gen,\"postVar\")     vblup <- 2*mean(vv1) # .0577 not exactly same as 'vblup' above   vblup      # H^2 Ad-hoc measure of heritability   sg2 <- c(lme4::VarCorr(m5blup)[[\"gen\"]])  # 0.142902   sg2 / (sg2 + vblue/2) # .803 matches asreml    # H^2c Similar measure proposed by Cullis.   1-(vblup / 2 / sg2) # .809 from asreml, .800 from lme4       # ----------   # Sommer to calculate Cullis H2   libs(sommer)   m2.ran <- mmer(fixed  = yield ~ rep,                  random =       ~ gen + rep:block,                  data   = dat)      vc_g     <- m2.ran$sigma$gen       # genetic variance component   n_g      <- n_distinct(dat$gen)    # number of genotypes   C22_g    <- m2.ran$PevU$gen$yield  # Prediction error variance matrix for genotypic BLUPs   trC22_g  <- sum(diag(C22_g))       # trace   # Mean variance of a difference between genotypic BLUPs. Smith eqn 26   # I do not see the algebraic reason for this...2   av2 <- 2/n_g * (trC22_g - (sum(C22_g)-trC22_g) / (n_g-1))                            ### H2 Cullis   1-(av2 / (2 * vc_g)) #0.8091  } # }"},{"path":"/reference/johnson.blight.html","id":null,"dir":"Reference","previous_headings":"","what":"Potato blight due to weather in Prosser, Washington — johnson.blight","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"Potato blight due weather Prosser, Washington","code":""},{"path":"/reference/johnson.blight.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"data frame 25 observations following 6 variables. year year area area affected, hectares blight blight detected, 0/1 numeric rain.number rainy days April May rain.ja number rainy days July August precip.m precipitation May temp > 5C, milimeters","code":""},{"path":"/reference/johnson.blight.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"variable 'blight detected' 1 'area' > 0.","code":""},{"path":"/reference/johnson.blight.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"Johnson, D.. Alldredge, J.R. Vakoch, D.L. (1996).   Potato late blight forecasting models semiarid environment   south-central Washington. Phytopathology, 86, 480–484.   https://doi.org/10.1094/Phyto-86-480","code":""},{"path":"/reference/johnson.blight.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"Vinayanand Kandala,   Logistic Regression","code":""},{"path":"/reference/johnson.blight.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Potato blight due to weather in Prosser, Washington — johnson.blight","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(johnson.blight) dat <- johnson.blight  # Define indicator for blight in previous year dat$blight.prev[2:25] <- dat$blight[1:24] dat$blight.prev[1] <- 0 # Need this to match the results of Johnson dat$blight.prev <- factor(dat$blight.prev) dat$blight <- factor(dat$blight)  # Johnson et al developed two logistic models to predict outbreak of blight  m1 <- glm(blight ~ blight.prev + rain.am + rain.ja, data=dat, family=binomial) summary(m1) ##              Estimate Std. Error z value Pr(>|z|) ## (Intercept)  -11.4699     5.5976  -2.049   0.0405 * ## blight.prev1   3.8796     1.8066   2.148   0.0318 * ## rain.am        0.7162     0.3665   1.954   0.0507 . ## rain.ja        0.2587     0.2468   1.048   0.2945 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## (Dispersion parameter for binomial family taken to be 1)  ##     Null deviance: 34.617  on 24  degrees of freedom ## Residual deviance: 13.703  on 21  degrees of freedom ## AIC: 21.703    m2 <- glm(blight ~ blight.prev + rain.am + precip.m, data=dat, family=binomial) summary(m2) ##              Estimate Std. Error z value Pr(>|z|) ## (Intercept)   -7.5483     3.8070  -1.983   0.0474 * ## blight.prev1   3.5526     1.6061   2.212   0.0270 * ## rain.am        0.6290     0.2763   2.276   0.0228 * ## precip.m      -0.0904     0.1144  -0.790   0.4295 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  ## (Dispersion parameter for binomial family taken to be 1)  ##     Null deviance: 34.617  on 24  degrees of freedom ## Residual deviance: 14.078  on 21  degrees of freedom ## AIC: 22.078  libs(lattice) splom(dat[,c('blight','rain.am','rain.ja','precip.m')],       main=\"johnson.blight - indicator of blight\")  } # }"},{"path":"/reference/johnson.douglasfir.html","id":null,"dir":"Reference","previous_headings":"","what":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"study small-plots old-growth Douglas Fir Oregon.","code":""},{"path":"/reference/johnson.douglasfir.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"","code":"data(\"johnson.douglasfir\")"},{"path":"/reference/johnson.douglasfir.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"data frame 1600 observations following 3 variables. row row col column volume volume per plot","code":""},{"path":"/reference/johnson.douglasfir.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"study 40 acres old-growth Douglas-Fir near Eugene, Oregon.   area divided 40--40 grid plots, 1/40 acre.   volume represents total timber volume (Scribner Decimal C)   1/40 acre plot. authors conclude 1-chain 3-chain 3/10 acre rectangle   efficient intensive cruise work. convert plot volume total volume per acre, multiply 40 (  plot 1/40 acre) multiply 10 (correction Scribner scale).","code":""},{"path":"/reference/johnson.douglasfir.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"Floyd . Johnson, Homer J. Hixon. (1952).   efficient size shape plot use cruising   old-growth Douglas-fir timber.   Jour. Forestry, 50, 17-20.   https://doi.org/10.1093/jof/50.1.17","code":""},{"path":"/reference/johnson.douglasfir.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"None","code":""},{"path":"/reference/johnson.douglasfir.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"A study of small-plots of old-growth Douglas Fir in Oregon. — johnson.douglasfir","text":"","code":"library(agridat) data(johnson.douglasfir) dat <- johnson.douglasfir  # Average volume per acre. Johnson & Hixon give 91000. # Transcription may have some errors...the pdf was blurry. mean(dat$volume) * 400 #> [1] 91124.25 # 91124   libs(lattice) levelplot(volume ~ col*row, dat, main=\"johnson.douglasfir\", aspect=1)  histogram( ~ volume, data=dat, main=\"johnson.douglasfir\")"},{"path":"/reference/jones.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn. — jones.corn.uniformity","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"Uniformity trial corn Iowa 2016.","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"","code":"data(\"jones.corn.uniformity\")"},{"path":"/reference/jones.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"data frame 144 observations following 3 variables. col column ordinate row row ordinate yield yield, bu/ac","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"data corresponds field \"ISU.SE\" paper Jones. Field width: 12 columns, 4.6 meters . Field length: 12 rows, 3 meters . Electronic version provided online supplement.  \"row\"   \"col\" variables supplement swapped   presentation data order consistent   figures paper. electronic supplemental data bu/ac, paper uses   kg/ha. Used permission Marcus Jones.","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"Jones, M., Harbur, M., & Moore, K. J. (2021).   Automating Uniformity Trials Optimize Precision Agronomic Field   Trials.   Agronomy, 11(6), 1254.   https://doi.org/10.3390/agronomy11061254","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"None","code":""},{"path":"/reference/jones.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn. — jones.corn.uniformity","text":"","code":"if (FALSE) { # \\dontrun{ library(agridat) data(jones.corn.uniformity) dat <- jones.corn.uniformity library(desplot) # Compare to figure 5 of Jones et al. desplot(dat, yield ~ col*row,         aspect=(12*4.6)/(12*3),         main=\"jones.corn.uniformity\") } # }"},{"path":"/reference/jurowski.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"Uniformity trial wheat Russia","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"","code":"data(\"jurowski.wheat.uniformity\")"},{"path":"/reference/jurowski.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"data frame 480 observations following 3 variables. row row ordinate col column ordinate yield yield, Pud per plot","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"experiment conducted Russia Ofrossimowka. word   \"Ofrossimowka\" appeared German text Sapehin,   otherwise extremely difficult find.  may alternate ways   actual Russian name translated German/English. Likewise, name \"Jurowski\" difficult find may   transliterations. Sapehin gives original source :   Arbeiten d. Vers.-St. d. Russ. Ges. f. Zuckerind. 1913.   may expand   Arbeiten der Versuchsstationen der Russ. Ges. f. Zuckerindustrie. 1913. Sepehin appendix says plot size \"4 x 12 m^2\".   clear plot dimension 4 m 12 m.   4m wide 12m tall, field 48m wide x 480m long.   4m tall 12m wide, field 144m wide x 160m long. seems   much likely. Sapehin says std dev \"21.8 pud\".  \"pud\" Russian unit   weight equal 16.38 kilograms. Data converted OCR Sapehin hand-checked K.Wright.","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"Sapěhin, . . (1927).   Beiträge zur Methodik des Feldversuches.   Die Landwirtschaflichen Versuchsstationen, 105, 243-259.   https://www.google.com/books/edition/Die_Landwirthschaftlichen_Versuchs_Stati/cLZGAAAAYAAJ?hl=en&pg=PA243","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"None","code":""},{"path":"/reference/jurowski.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat in Russia — jurowski.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(jurowski.wheat.uniformity)   dat <- jurowski.wheat.uniformity      sd(dat$yield)   libs(desplot)   desplot(dat, yield~col*row,           aspect=(40*4)/(12*12), flip=TRUE, tick=TRUE,           main=\"jurowski.wheat.uniformity\") } # }"},{"path":"/reference/kadam.millet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of millet — kadam.millet.uniformity","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"Uniformity trial millet India 2 years","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"","code":"data(\"kadam.millet.uniformity\")"},{"path":"/reference/kadam.millet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"data frame 240 observations following 4 variables. year year row row col column yield yield, ounces","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"Uniformity trials conducted kharip (monsoon) seasons   1933 1934 Kundewadi, Niphad, district Nasik,   India. Bajari (pearl millet) strain 54 used. 1933: Field width: 8 plots * 16.5 feet Field length: 10 plots * 33 feet 1934: Field width: 8 plots * 16.5 feet Field length: 20 plots * 16.5 feet","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"B. S. Kadam S. M. Patel. (1937).   Studies Field-Plot Technique P. Typhoideum Rich.   Empire Journal Experimental Agriculture, 5, 219-230.   https://archive.org/details/.ernet.dli.2015.25282","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"None.","code":""},{"path":"/reference/kadam.millet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of millet — kadam.millet.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(kadam.millet.uniformity)   dat <- kadam.millet.uniformity      # similar to Kadam fig 1   libs(desplot)   desplot(dat, yield ~ col*row,           subset=year==1933,           flip=TRUE, aspect=(10*33)/(8*16.5), # true aspect           main=\"kadam.millet.uniformity 1933\")    desplot(dat, yield ~ col*row,           subset=year==1934,           flip=TRUE, aspect=(20*16.5)/(8*16.5), # true aspect           main=\"kadam.millet.uniformity 1934\")    } # }"},{"path":"/reference/kalamkar.potato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of potatoes — kalamkar.potato.uniformity","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"Uniformity trial potatoes Saskatchewan, Canada, 1929.","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"","code":"data(\"kalamkar.potato.uniformity\")"},{"path":"/reference/kalamkar.potato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"data frame 576 observations following 3 variables. row row col column yield yield, pounds per plot","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"data potato yields 96 rows, 132 feet long, 3   feet rows. row harvested six plots, 22 feet long.  hill   one seed piece.  Hills spaced 2 feet apart row. Field width: 6 plots * 22 feet = 132 feet Field length: 96 rows * 3 feet = 288 feet Units yield given.  experiment, 22   plants per plot. Today potato plants yield 3-5 pounds.   assume experiment yield 2 pound per plant,   22 pounds per plot, similar data   values. Also, Kirk 1929 mentions \"200 bushels per acre\", 22 pounds   per plot x (43560/66) divided (60 pounds per bushel) = 242,   seems reasonable.  Also `kirk.potato` data author   recorded pounds per plot.","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"Kalamkar, R.J. (1932).   Experimental Error Field-Plot Technique Potatoes.   Journal Agricultural Science, 22, 373-385.   https://doi.org/10.1017/S0021859600053697","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"Kirk, L. E. (1929)   Field plot technique potatoes special reference Latin   square.   Scientific Agriculture, 9, 719.   https://cdnsciencepub.com/doi/10.4141/sa-1929-0067   https://doi.org/10.4141/sa-1929-0067   https://www.google.com/books/edition/Revue_Agronomique_Canadien/-gMkAQAAMAAJ","code":""},{"path":"/reference/kalamkar.potato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of potatoes — kalamkar.potato.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kalamkar.potato.uniformity) dat <- kalamkar.potato.uniformity  # Similar to figure 1 of Kalamkar libs(desplot) desplot(dat, yield~col*row,         flip=TRUE, tick=TRUE, aspect=288/132, # true aspect         main=\"kalamkar.potato.uniformity\")    } # }"},{"path":"/reference/kalamkar.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — kalamkar.wheat.uniformity","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"Uniformity trial wheat Rothamsted, UK 1931.","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"","code":"data(\"kalamkar.wheat.uniformity\")"},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"data frame 1280 observations following 4 variables. row row col column yield yield, grams/half-meter ears ears per half-meter","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"Kalamkar's paper published 1932. Estimated crop year 1931. Plot 18 Four Course Rotation Experiment, Great Hoos,   Rothamsted, UK used.  Sown Yeoman II wheat. Field width = 16 segments * 0.5 meters = 8 meters. Field length: 80 rows * 6 inches apart = 40 feet. grain yield number ears half-meter length   recorded. quite small field, 1/40 acre size. Edge rows higher yields. Row-end units higher yields   interior units.  border effects significant. Variation   rows greater variation within rows. Negative   correlation rows may indicate competition effects. ears, Kalamkar discarded 4 rows side 3 half-meter lengths end. Kalamkar suggested using four parallel half-meter rows sampling unit. Note, Rothamsted report 1931, page 57, says:   year three workers (F. R. Immer, S. H. Justensen   R. J. Kalamkar) taken question efficient use   land experiments edge row must discarded...","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"Kalamkar, R. J (1932).   Study Sampling Technique Wheat.   Journal Agricultural Science, Vol.22(4), pp.783-796.   https://doi.org/10.1017/S0021859600054599","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"None.","code":""},{"path":"/reference/kalamkar.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — kalamkar.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(kalamkar.wheat.uniformity)   dat <- kalamkar.wheat.uniformity      plot(yield ~ ears, dat, main=\"kalamkar.wheat.uniformity\")      # totals match Kalamkar   # sum(dat$yield) # 24112.5   # sum(dat$ears) # 25850      libs(desplot)   desplot(dat, ears ~ col*row,           flip=TRUE, aspect=(80*0.5)/(16*1.64042), # true aspect           main=\"kalamkar.wheat.uniformity - ears\")   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(80*0.5)/(16*1.64042), # true aspect           main=\"kalamkar.wheat.uniformity - yield\")      # ----------      if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)          # Show the negative correlation between rows     dat <- transform(dat,                      rowf=factor(row), colf=factor(col))     dat <- dat[order(dat$rowf, dat$colf),]     m1 = asreml(yield ~ 1, data=dat, resid= ~ ar1(rowf):ar1(colf))     lucid::vc(m1)     ##             effect component std.error z.ratio bound pctch     ##        rowf:colf!R  81.53      3.525      23       P 0       ## rowf:colf!rowf!cor  -0.09464   0.0277     -3.4     U 0.1     ## rowf:colf!colf!cor   0.2976    0.02629    11       U 0.1   }    } # }"},{"path":"/reference/kang.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"Maize yields 4 locs 3 years Louisianna.","code":""},{"path":"/reference/kang.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"","code":"data(\"kang.maize\")"},{"path":"/reference/kang.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"gen genotype, 17 levels env environment, 12 levels yield yield, tonnes/ha environment environment, 13 levels year year, 85-87 loc location, 4 levels","code":""},{"path":"/reference/kang.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"Yield trials conducted four locations (Alexandria, Baton   Rouge, Bossier City, St. Joseph) Louisiana 1985 1987.   loc planted RCB design 4 reps.  Mean yields given   data. Used permission Dan Gorman.","code":""},{"path":"/reference/kang.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"Kang, MS Gorman, DP. (1989).   Genotype x environment interaction maize.   Agronomy Journal, 81, 662-664.  Table 2.","code":""},{"path":"/reference/kang.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize in Louisianna at 4 locs in 3 years — kang.maize","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kang.maize) dat <- kang.maize  # Sweep out loc means, then show interaction plot. libs(reshape2) mat <- acast(dat, gen~env, value.var='yield') mat <- sweep(mat, 2, colMeans(mat)) dat2 <- melt(mat) names(dat2) <- c('gen','env','yield') libs(lattice) xyplot(yield~env|gen, data=dat2, type='l', group=gen,        panel=function(x,y,...){          panel.abline(h=0,col=\"gray70\")          panel.xyplot(x,y,...)        },        ylab=\"Environment-centered yield\",        main=\"kang.maize - maize hybrid yields\", scales=list(x=list(rot=90)))   # Weather covariates for each environment. covs <- data.frame(env=c(\"AL85\",\"AL86\",\"AL87\", \"BR85\",\"BR86\",\"BR87\",                      \"BC85\",\"BC86\",\"BC87\", \"SJ85\",\"SJ86\",\"SJ87\"),                    maxt=c(30.7,30.2,29.7,31.5,29.4,28.5, 31.9, 30.4,31.7, 32,29.6,28.9),                    mint=c(18.7,19.3,18.5, 19.7,18,17.2, 19.1,20.4,20.3, 20.4,19.1,17.5),                    rain=c(.2,.34,.22, .28,.36,.61, .2,.43,.2, .36,.41,.22),                    humid=c(82.8,91.1,85.4, 88.1,90.9,88.6, 95.4,90.4,86.7, 95.6,89.5,85))  } # }"},{"path":"/reference/kang.peanut.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"Peanut yields 10 genotypes 15 environments","code":""},{"path":"/reference/kang.peanut.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"","code":"data(\"kang.peanut\")"},{"path":"/reference/kang.peanut.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"data frame 590 observations following 4 variables. gen genotype factor, 10 levels rep replicate factor, 4 levels yield yield env environment factor, 15 levels","code":""},{"path":"/reference/kang.peanut.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"Florman, Tegua, mf484, mf485, mf487, mf489 long crop cycle.   others short crop cycle. data also likely used Casanoves et al 2005,   \"Evaluation Multienvironment Trials Peanut Cultivars\",   appears slightly smaller subset (10 genotypes,   perhaps years 96,97,98,99).  Based d.f.   table 5, appears environment E13 grown 1998.   (5 loc * (4-1) = 15, table 14, 98-99 3 reps   instead 4 reps.) Data National Institute Agricultural Technology, Argentina.","code":""},{"path":"/reference/kang.peanut.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"M. S. Kang, M. Balzarini, J. L. L. Guerra   (2004). Genotype--environment   interaction\". : . Saxton (2004). \"Genetic Analysis Complex   Traits Using SAS\".","code":""},{"path":"/reference/kang.peanut.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"Johannes Forkman, Julie Josse, Hans-Peter Piepho (2019).   Hypothesis Tests Principal Component Analysis Variables Standardized.   JABES https://doi.org/10.1007/s13253-019-00355-5","code":""},{"path":"/reference/kang.peanut.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of peanuts for 10 genotypes in 15 environments — kang.peanut","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kang.peanut) dat <- kang.peanut  # Table 5.1 of Kang et al. (Chapter 5 of Saxton) libs(reshape2) Y0 <- acast(dat, env~gen, value.var='yield', fun=mean) round(Y0,2)  # GGE biplot of Kang, p. 82. libs(gge) m1 <- gge(dat, yield~gen*env, scale=FALSE) biplot(m1, flip=c(1,1), main=\"kang.peanut - GGE biplot\")  # Forkman 2019, fig 2 # m2 <- gge(dat, yield~gen*env, scale=TRUE) # biplot(m2, main=\"kang.peanut - GGE biplot\") # biplot(m2, comps=3:4, main=\"kang.peanut - GGE biplot\")  } # }"},{"path":"/reference/karcher.turfgrass.html","id":null,"dir":"Reference","previous_headings":"","what":"Turfgrass ratings for different treatments — karcher.turfgrass","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"Turfgrass ratings different treatments","code":""},{"path":"/reference/karcher.turfgrass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"data frame 128 observations following 6 variables. week week number rep blocking factor manage management factor, 4 levels nitro nitrogen factor, 2 levels rating turfgrass rating, 4 ordered levels count number samples given rating","code":""},{"path":"/reference/karcher.turfgrass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"Turf color assessed scale Poor, Average, Good, Excellent. data number times combination management style   nitrogen level received particular rating across four replicates   four sampling weeks.  eight treatments completely   randomized design. Nitrogen level 1 2.5 g/m^2, level 2 5 g/m^2. Management 1 = N applied supplemental water injection. M2 = surface applied supplemental water injection. M3 = nitrogen injected 7.6 cm deep M4 = nitrogen injected 12.7 cm deep.","code":""},{"path":"/reference/karcher.turfgrass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"Schabenberger, Oliver Francis J. Pierce. 2002.   Contemporary Statistical Models Plant Soil     Sciences. CRC Press.  Page 380.","code":""},{"path":"/reference/karcher.turfgrass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Turfgrass ratings for different treatments — karcher.turfgrass","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(karcher.turfgrass) dat <- karcher.turfgrass  dat$rating <- ordered(dat$rating, levels=c('Poor','Average', 'Good','Excellent'))  ftable(xtabs(~manage+nitro+rating, dat)) # Table 6.19 of Schabenberger  # Probably would choose management M3, nitro N2 mosaicplot(xtabs(count ~ manage + rating + nitro, dat),            shade=TRUE, dir=c('h','v','h'),            main=\"karcher.turfgrass - turfgrass ratings\")  # Multinomial logistic model.  Probit Ordered Logistic Regression. libs(MASS) m1 <- polr(rating ~ nitro*manage + week, dat, weights=count, Hess=TRUE, method='logistic') summary(m1)  # Try to match the \"predicted marginal probability distribution\" of # Schabenberger table 6.20.  He doesn't define \"marginal\". # Are the interaction terms included before aggregation? # Are 'margins' calculated before/after back-transforming? # At what level is the covariate 'week' included?  # Here is what Schabenberger presents: ##        M1   M2   M3   M4  |   N1  N2 ## Poor  .668 .827 .001 .004 | .279 .020 ## Avg   .330 .172 .297 .525 | .712 .826 ## Good  .002 .001 .695 .008 | .008 .153 ## Exc   .000 .000 .007 .003 | .001 .001  ## We use week=3.5, include interactions, then average newd <- expand.grid(manage=levels(dat$manage), nitro=levels(dat$nitro), week=3.5) newd <- cbind(newd, predict(m1, newdata=newd, type='probs')) # probs) print(aggregate( . ~ manage, data=newd, mean), digits=2) ##   manage nitro week   Poor Average    Good Excellent ## 1     M1   1.5  3.5 0.67      0.33 0.0011  0.0000023 ## 2     M2   1.5  3.5 0.76      0.24 0.00059 0.0000012 ## 3     M3   1.5  3.5 0.0023    0.48 0.52    0.0042 ## 4     M4   1.5  3.5 0.0086    0.57 0.42    0.0035  } # }"},{"path":"/reference/kayad.alfalfa.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"Yield monitor data 4 cuttings alfalfa Saudi Arabia.","code":""},{"path":"/reference/kayad.alfalfa.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"","code":"data(\"kayad.alfalfa\")"},{"path":"/reference/kayad.alfalfa.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"data frame 8628 observations following 4 variables. harvest harvest number lat latitude long longitude yield yield, tons/ha","code":""},{"path":"/reference/kayad.alfalfa.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"Data collected 23.5 ha field alfalfa Saudia Arabia.   field harvested four consecutive times (H8 = 5 Dec 2013, H9 = 16 Feb 2014, H10 = 2 Apr 2014, H11 = 6 May 2014).   Data collected using geo-referenced yield monitor.   Supporting information contains yield monitor data 4 hay harvests center-pivot field. # TODO: Normalize yields harvest, average together   # create productivity map. Two ways normalize:   # Normalize 0-100: ((mapValue - min) * 100) / (max - min)   # Standardize: ((mapValue - mean) / stdev) * 100","code":""},{"path":"/reference/kayad.alfalfa.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"Ahmed G. Kayad, et al. (2016).   Assessing Spatial Variability Alfalfa Yield Using Satellite Imagery Ground-Based Data.   PLOS One, 11(6).   https://doi.org/10.1371/journal.pone.0157166","code":""},{"path":"/reference/kayad.alfalfa.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"None","code":""},{"path":"/reference/kayad.alfalfa.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield monitor data for 4 cuttings of alfalfa in Saudi Arabia. — kayad.alfalfa","text":"","code":"library(agridat)   data(kayad.alfalfa)   dat <- kayad.alfalfa    # match Kayad table 1 stats   libs(dplyr) #>  #> Attaching package: ‘dplyr’ #> The following object is masked from ‘package:gridExtra’: #>  #>     combine #> The following object is masked from ‘package:MASS’: #>  #>     select #> The following object is masked from ‘package:nlme’: #>  #>     collapse #> The following objects are masked from ‘package:stats’: #>  #>     filter, lag #> The following objects are masked from ‘package:base’: #>  #>     intersect, setdiff, setequal, union   dat <- group_by(dat, harvest)   summarize(dat, min=min(yield), max=max(yield),             mean=mean(yield), stdev=sd(yield), var=var(yield)) #> # A tibble: 4 × 6 #>   harvest   min   max  mean stdev   var #>   <fct>   <dbl> <dbl> <dbl> <dbl> <dbl> #> 1 H10     0      6.68  2.86  1.24  1.55 #> 2 H11     0      9.96  4.01  1.69  2.85 #> 3 H8      0      5.86  2.32  1.01  1.03 #> 4 H9      0.191  5.97  2.45  1.07  1.14    # Figure 4 of Kayad   libs(latticeExtra)   catcols <- c(\"#cccccc\",\"#ff0000\",\"#ffff00\",\"#55ff00\",\"#0070ff\",\"#c500ff\",\"#73004c\")   levelplot(yield ~ long*lat |harvest, dat,             aspect=1, at = c(0,2,3,4,5,6,7,10), col.regions=catcols,             main=\"kayad.alfalfa\",             prepanel=prepanel.default.xyplot,             panel=panel.levelplot.points)     # Similar to Kayad fig 5.   ## levelplot(yield ~ long*lat |harvest, dat,   ##           prepanel=prepanel.default.xyplot,   ##           panel=panel.levelplot.points,   ##           col.regions=pals::brewer.reds)"},{"path":"/reference/keen.potatodamage.html","id":null,"dir":"Reference","previous_headings":"","what":"Damage to potato tubers from lifting rods. — keen.potatodamage","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"Damage potato tubers lifting rods.","code":""},{"path":"/reference/keen.potatodamage.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"","code":"data(\"keen.potatodamage\")"},{"path":"/reference/keen.potatodamage.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"data frame 1152 observations following 6 variables. energy energy factor weight weight class gen genotype/variety factor rod rod factor damage damage category count count tubers combination categories","code":""},{"path":"/reference/keen.potatodamage.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"Experiments performed Wageningen, Netherlands. Potatoes can damaged lifter.  experiment, eight   types lifting rod compared.  Two energy levels, six   genotypes/varieties three weight classes used.   combinations treatments involved 20 potato tubers.   Tubers rated undamaged (D1) severely damaged (D4). main interest differences rods,   interactions.  factors (besides rod) introduced   create variety experimental conditions interest. Keen Engle estimated following rod effects. # Rod: 1 2 3 4 5 6 7 8 # Effect: 0 -1.26 -0.42 0.55 -1.50 -1.85 -1.76 -2.09 Used permission Bas Engel.","code":""},{"path":"/reference/keen.potatodamage.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":". Keen B. Engel.   Analysis mixed model ordinal data iterative re-weighted REML.   Statistica Neerlandica, 51, 129–144. Table 2.   https://doi.org/10.1111/1467-9574.00044","code":""},{"path":"/reference/keen.potatodamage.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"R. Larsson & Jesper Ryden (2021).   Applications discrete factor analysis.   Communications Statistics - Simulation Computation.   https://doi.org/10.1080/03610918.2021.1964528","code":""},{"path":"/reference/keen.potatodamage.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Damage to potato tubers from lifting rods. — keen.potatodamage","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(keen.potatodamage) dat <- keen.potatodamage  # Energy E1, Rod R4, Weight W1 have higher proportions of severe damage # Rod 8 has the least damage d2 <- xtabs(count~energy+rod+gen+weight+damage, data=dat) mosaicplot(d2, color=c(\"lemonchiffon1\",\"moccasin\",\"lightsalmon1\",\"indianred\"),            xlab=\"Energy / Genotype\", ylab=\"Rod / Weight\", main=\"keen.potatodamage\")   # Not run because CRAN prefers examples less than 5 seconds. libs(ordinal) # Note, the clmm2 function can have only 1 random term.  Results are # similar to Keen & Engle, but necessarily different (they had multiple # random terms). m1 <- clmm2(damage ~ rod + energy + gen + weight, data=dat,             weights=count, random=rod:energy, link='probit') round(coef(m1)[4:10],2) ## rodR2 rodR3 rodR4 rodR5 rodR6 rodR7 rodR8 ## -1.19 -0.41  0.50 -1.46 -1.73 -1.67 -1.99  # Alternative # m2 <- clmm(damage ~ rod + energy + gen + weight + #          (1|rod:energy), data=dat, weights=count, link='probit')  } # }"},{"path":"/reference/kempton.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — kempton.barley.uniformity","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"Uniformity trial barley Cambridge, England, 1978.","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"data frame 196 observations following 3 variables. row row col column yield grain yield, kg","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"uniformity trial spring barley planted 1978.  Conducted   Plant Breeding Institute Cambridge, England. plot 5 feet wide, 14 feet long. Field width: 7 plots * 14 feet = 98 feet Field length: 28 plots * 5 feet = 140 feet","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"R. . Kempton C. W. Howes (1981).   use neighbouring plot values analysis variety trials.   Applied Statistics, 30, 59–70.   https://doi.org/10.2307/2346657","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science. 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/kempton.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — kempton.barley.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(kempton.barley.uniformity)   dat <- kempton.barley.uniformity    libs(desplot)   desplot(dat, yield~col*row,           aspect=140/98, tick=TRUE, # true aspect           main=\"kempton.barley.uniformity\")         # Kempton estimated auto-regression coefficients b1=0.10, b2=0.91      dat <- transform(dat, xf = factor(col), yf=factor(row))    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)        dat <- transform(dat, xf = factor(col), yf=factor(row))     m1 <- asreml(yield ~ 1, data=dat, resid = ~ar1(xf):ar1(yf))        # lucid::vc(m1)     ##       effect component std.error z.ratio bound      ##      xf:yf!R    0.1044   0.02197     4.7     P   0     ## xf:yf!xf!cor    0.2458   0.07484     3.3     U   0     ## xf:yf!yf!cor    0.8186   0.03821    21       U   0        # asreml estimates auto-regression correlations of 0.25, 0.82     # Kempton estimated auto-regression coefficients b1=0.10, b2=0.91   }      # ----------    if(0){     # Kempton defines 4 blocks, randomly assigns variety codes 1-49 in each block, fits     # RCB model, computes mean squares for variety and residual.  Repeat 40 times.     # Kempton's estimate: variety = 1032, residual = 1013     # Our estimate: variety = 825, residual = 1080     fitfun <- function(dat){       dat <- transform(dat, block=factor(ceiling(row/7)),                        gen=factor(c(sample(1:49),sample(1:49),sample(1:49),sample(1:49))))       m2 <- lm(yield*100 ~ block + gen, dat)       anova(m2)[2:3,'Mean Sq']     }     set.seed(251)     out <- replicate(50, fitfun(dat))     rowMeans(out) # 826 1079   }   } # }"},{"path":"/reference/kempton.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Sugar beet trial with competition effects — kempton.competition","title":"Sugar beet trial with competition effects — kempton.competition","text":"Yield sugar beets 36 varieties 3-rep RCB experiment.   Competition effects present.","code":""},{"path":"/reference/kempton.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Sugar beet trial with competition effects — kempton.competition","text":"data frame 108 observations following 5 variables. gen genotype, 36 levels rep rep, 3 levels row row col column yield yield, kg/plot","code":""},{"path":"/reference/kempton.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Sugar beet trial with competition effects — kempton.competition","text":"Entries grown 12m rows, 0.5m apart.  Guard rows grown   alongside replicate boundaries, yields plots   included.","code":""},{"path":"/reference/kempton.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Sugar beet trial with competition effects — kempton.competition","text":"R Kempton, 1982.   Adjustment competition varieties plant breeding trials,   Journal Agricultural Science, 98, 599-611.   https://doi.org/10.1017/S0021859600054381","code":""},{"path":"/reference/kempton.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Sugar beet trial with competition effects — kempton.competition","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)  data(kempton.competition) dat <- kempton.competition  # Raw means in Kempton table 2 round(tapply(dat$yield, dat$gen, mean),2)  # Fixed genotype effects, random rep effects, # Autocorrelation of neighboring plots within the same rep, phi = -0.22 libs(nlme) m1 <- lme(yield ~ -1+gen, random=~1|rep, data=dat,           corr=corAR1(form=~col|rep)) # Lag 1 autocorrelation is negative--evidence of competition plot(ACF(m1), alpha=.05, grid=TRUE, main=\"kempton.competition\",      ylab=\"Autocorrelation between neighborning plots\")  # Genotype effects round(fixef(m1),2)  # Variance of yield increases with yield plot(m1, main=\"kempton.competition\")  } # }"},{"path":"/reference/kempton.rowcol.html","id":null,"dir":"Reference","previous_headings":"","what":"Row-column experiment of wheat — kempton.rowcol","title":"Row-column experiment of wheat — kempton.rowcol","text":"Row-column experiment wheat, 35 genotypes, 2 reps.","code":""},{"path":"/reference/kempton.rowcol.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Row-column experiment of wheat — kempton.rowcol","text":"data frame 68 observations following 5 variables. rep replicate factor, 2 levels row row col column gen genotype factor, 35 levels yield yield","code":""},{"path":"/reference/kempton.rowcol.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Row-column experiment of wheat — kempton.rowcol","text":"Included illustrate REML analysis row-column design.","code":""},{"path":"/reference/kempton.rowcol.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Row-column experiment of wheat — kempton.rowcol","text":"R Kempton P N Fox,   Statistical Methods Plant Variety Evaluation,   Chapman Hall, 1997.","code":""},{"path":"/reference/kempton.rowcol.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Row-column experiment of wheat — kempton.rowcol","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kempton.rowcol) dat <- kempton.rowcol dat <- transform(dat, rowf=factor(row), colf=factor(col))  libs(desplot) desplot(dat, yield~col*row|rep,         num=gen, out1=rep, # unknown aspect         main=\"kempton.rowcol\")   # Model with rep, row, col as random.  Kempton, page 62. # Use \"-1\" so that the vcov matrix doesn't include intercept libs(lme4) m1 <- lmer(yield ~ -1 + gen + rep + (1|rep:rowf) + (1|rep:colf), data=dat)  # Variance components match Kempton. print(m1, corr=FALSE)  # Standard error of difference for genotypes.  Kempton page 62, bottom. covs <- as.matrix(vcov(m1)[1:35, 1:35]) vars <- diag(covs) vdiff <- outer(vars, vars, \"+\") - 2 * covs sed <- sqrt(vdiff[upper.tri(vdiff)]) min(sed) # Minimum SED mean(sed) # Average SED max(sed) # Maximum SED  } # }"},{"path":"/reference/kempton.slatehall.html","id":null,"dir":"Reference","previous_headings":"","what":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"Yields Slate Hall Farm 1976 spring wheat trial.","code":""},{"path":"/reference/kempton.slatehall.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"data frame 150 observations following 5 variables. rep rep, 6 levels row row col column gen genotype, 25 levels yield yield (grams/plot)","code":""},{"path":"/reference/kempton.slatehall.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"trial balanced lattice 25 varieties 6 replicates,   10 ranges 15 columns.  plot size 1.5 meters 4 meters.   row within rep (incomplete) block. Field width: 15 columns * 1.5m = 22.5m Field length: 10 ranges * 4m = 40m","code":""},{"path":"/reference/kempton.slatehall.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"R Kempton P N Fox. (1997).   Statistical Methods Plant Variety Evaluation,   Chapman Hall.  Page 84. Julian Besag David Higdon. 1993.   Bayesian Inference Agricultural Field Experiments.   Bull. Int. Statist. Table 4.1.","code":""},{"path":"/reference/kempton.slatehall.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"Gilmour, Arthur R Robin Thompson Brian R Cullis. (1994).   Average Information REML: Efficient Algorithm Variance   Parameter Estimation Linear Mixed Models, Biometrics,   51, 1440-1450.","code":""},{"path":"/reference/kempton.slatehall.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Slate Hall Farm 1976 spring wheat — kempton.slatehall","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(kempton.slatehall)   dat <- kempton.slatehall    # Besag 1993 figure 4.1 (left panel)   libs(desplot)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   desplot(dat, yield ~ col * row,           aspect=40/22.5, # true aspect           num=gen, out1=rep, col.regions=grays, # unknown aspect           main=\"kempton.slatehall - spring wheat yields\")    # ----------    # Incomplete block model of Gilmour et al 1995   libs(lme4, lucid)   dat <- transform(dat, xf=factor(col), yf=factor(row))   m1 <- lmer(yield ~ gen + (1|rep) + (1|rep:yf) + (1|rep:xf), data=dat)   vc(m1)   ##    groups        name variance stddev   ##  rep:xf   (Intercept)    14810 121.7   ##  rep:yf   (Intercept)    15600 124.9   ##  rep      (Intercept)     4262  65.29   ##  Residual                 8062  89.79         # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)        # Incomplete block model of Gilmour et al 1995     dat <- transform(dat, xf=factor(col), yf=factor(row))     m2 <- asreml(yield ~ gen, random = ~ rep/(xf+yf), data=dat)          lucid::vc(m2)     ##          effect component std.error z.ratio constr     ##     rep!rep.var      4262      6890    0.62    pos     ##  rep:xf!rep.var     14810      4865    3       pos     ##  rep:yf!rep.var     15600      5091    3.1     pos     ##      R!variance      8062      1340    6       pos          # Table 4     # asreml4     # predict(m2, data=dat, classify=\"gen\")$pvals   }    } # }"},{"path":"/reference/kenward.cattle.html","id":null,"dir":"Reference","previous_headings":"","what":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"Repeated measurements weights calves trial   control intestinal parasites.","code":""},{"path":"/reference/kenward.cattle.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"","code":"data(\"kenward.cattle\")"},{"path":"/reference/kenward.cattle.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"data frame 660 observations following 4 variables. animal animal factor trt treatment factor, B day day, numberic, 0-133 weight bodyweight, kg","code":""},{"path":"/reference/kenward.cattle.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"Grazing cattle can ingest larvae, deprives host animal   nutrients weakens immune system, affecting growth   animal. Two treatments B applied randomly 60 animals   (30 two groups) control disease. animal weighed 11 times two-week intervals (one week   final two measurements). difference treatments, difference   first become manifest?","code":""},{"path":"/reference/kenward.cattle.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"Kenward, Michael G. (1987).   Method Comparing Profiles Repeated Measurements.   Applied Statistics, 36, 296-308.  Table 1.   https://doi.org/10.2307/2347788","code":""},{"path":"/reference/kenward.cattle.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"W. Zhang, C. Leng C. Y. Tang (2015).   joint modelling approach longitudinal studies   J. R. Statist. Soc. B, 77 (2015), 219–238.   https://doi.org/10.1111/rssb.12065","code":""},{"path":"/reference/kenward.cattle.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Repeated measurement of weights of calves with two treatments. — kenward.cattle","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(kenward.cattle)   dat <- kenward.cattle    # Profile plots   libs(lattice)   foo1 <- xyplot(weight~day|trt, data=dat, type='l', group=animal,                  xlab=\"Day\", ylab=\"Animal weight\", main=\"kenward.cattle\")   print(foo1)      # ----------    # lme4. Fixed treatment intercepts, treatment polynomial trend.   # Random deviation for each animal   libs(lme4)   m1a <-lmer(weight ~ trt*poly(day, 4) + (1|animal), data=dat,              REML = FALSE)   # Change separate polynomials into common polynomial   m1b <-lmer(weight ~ trt + poly(day, 4) + (1|animal), data=dat,              REML = FALSE)   # Drop treatment differences   m1c <-lmer(weight ~ poly(day, 4) + (1|animal), data=dat,              REML = FALSE)   anova(m1a, m1b, m1c) # Significant differences between trt polynomials    # Overlay polynomial predictions on plot   libs(latticeExtra)   dat$pred <- predict(m1a, re.form=NA)   foo1 + xyplot(pred ~ day|trt, data=dat,                 lwd=2, col=\"black\", type='l')      # A Kenward-Roger Approximation and Parametric Bootstrap   # libs(pbkrtest)   # KRmodcomp(m1b, m1c) # Non-signif   # Model comparison of nested models using parametric bootstrap methods   # PBmodcomp(m1b, m1c, nsim=500)   ## Parametric bootstrap test; time: 13.20 sec; samples: 500 extremes: 326;   ## large : weight ~ trt + poly(day, 4) + (1 | animal)   ## small : weight ~ poly(day, 4) + (1 | animal)   ##          stat df p.value   ## LRT    0.2047  1  0.6509   ## PBtest 0.2047     0.6527    # -----------    # ASREML approach to model. Not final by any means.   # Maybe a spline curve for each treatment, plus random deviations for each time   if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     m1 <- asreml(weight ~  1 + lin(day) +    # overall line                    trt + trt:lin(day),       # different line for each treatment                  data=dat,                  random = ~ spl(day) +       # overall spline                    trt:spl(day) +            # different spline for each treatment                    dev(day) + trt:dev(day) ) # non-spline deviation at each time*trt          p1 <- predict(m1, data=dat, classify=\"trt:day\")     p1 <- p1$pvals          foo2 <- xyplot(predicted.value ~ day|trt, p1, type='l', lwd=2, lty=1, col=\"black\")        libs(latticeExtra)     print(foo1 + foo2)      # Not much evidence for treatment differences        # wald(m1)     ##               Df Sum of Sq Wald statistic Pr(Chisq)         ## (Intercept)    1  37128459         139060    <2e-16 ***     ## trt            1       455              2    0.1917         ## lin(day)       1    570798           2138    <2e-16 ***     ## trt:lin(day)   1       283              1    0.3031         ## residual (MS)          267                                     # lucid::vc(m1)     ##               effect component std.error z.ratio constr     ##             spl(day)  25.29    24.09        1       pos     ##             dev(day)   1.902    4.923       0.39    pos     ## trt:spl(day)!trt.var   0.00003  0.000002   18      bnd      ## trt:dev(day)!trt.var   0.00003  0.000002   18      bnd      ##           R!variance 267       14.84       18       pos   }    } # }"},{"path":"/reference/kerr.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"Uniformity trials sugarcane, 4 fields","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"","code":"data(\"kerr.sugarcane.uniformity\")"},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"data frame 564 observations following 4 variables. row row col column yield yield, pounds per plot trial trial number","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"Experiment conducted Sugar Experiment Station, Brisbane, Queensland, Australia 1937. Four trials harvested, 12 plots 12 plots, plot 19 feet 19 feet (one field used 18-foot plots). Trial 1 plant cane. Trial 2 ratoon cane. Trial 3 plant cane, irrigated. Trial 4 ratoon cane, irrigated. Field length: 12 plots * 19 feet = 228 feet. Field width: 12 plots * 19 feet = 228 feet.","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"H. W. Kerr (1939). Notes plot technique.   Proc. Internat. Soc. Sugarcane Technol. 6, 764–778.","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"None","code":""},{"path":"/reference/kerr.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of sugarcane, 4 fields — kerr.sugarcane.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kerr.sugarcane.uniformity) dat <- kerr.sugarcane.uniformity  # match Kerr figure 4 libs(desplot) desplot(dat, yield ~ col*row|trial,         flip=TRUE, aspect=1, # true aspect         main=\"kerr.sugarcane.uniformity\")  # CV matches Kerr table 2, page 768 # aggregate(yield ~ trial, dat, FUN= function(x) round(100*sd(x)/mean(x),2)) ##   trial yield ## 1    T1  7.95 ## 2    T2  9.30 ## 3    T3 10.37 ## 4    T4 13.76  } # }"},{"path":"/reference/khan.brassica.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of brassica. — khan.brassica.uniformity","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"Uniformity trial brassica India.","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"","code":"data(\"khan.brassica.uniformity\")"},{"path":"/reference/khan.brassica.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"data frame 648 observations following 4 variables. field Field, F1 F2 row row ordinate col column ordinate yield yield, 1/8 ounce","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"Two different fields used, representing average type soil   Lyallpur.   area 90 ft 90 ft marked harvested individual   plots 5 feet per side. data copied pdf hand-corrected.","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"Khan, Abdur Rashid Jage Ram Dalal (1943).   Optimum Size Shape Plots Brassica Experiments Punjab.   Sankhyā: Indian Journal Statistics ,6, 3. Proceedings Indian Statistical Conference 1942 (1943), pp. 317-320.   https://www.jstor.org/stable/25047782","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"None.","code":""},{"path":"/reference/khan.brassica.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of brassica. — khan.brassica.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(khan.brassica.uniformity)   dat <- khan.brassica.uniformity    # Slightly different results than Khan Table 1.   ## dat    ##   mutate(yield=yield/8)    ##   group_by(field)    ##   summarize(mn=mean(yield), sd=sd(yield))    libs(desplot)   desplot(dat, yield ~ col*row | field,           flip=TRUE, aspect=1,           main=\"khan.brassica.uniformity\")  } # }"},{"path":"/reference/khin.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — khin.rice.uniformity","title":"Uniformity trial of rice — khin.rice.uniformity","text":"Uniformity trial rice Burma, 1948.","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — khin.rice.uniformity","text":"","code":"data(\"khin.rice.uniformity\")"},{"path":"/reference/khin.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — khin.rice.uniformity","text":"data frame 1080 observations following 3 variables. row row col column yield yield, oz/plot","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — khin.rice.uniformity","text":"uniformity trial rice. Conducted Mudon Agricultural   Station, Burma, 1947-48.  Basic plots 3 feet square. Field width: 30 plots * 3 feet. Field length: 36 plots * 3 feet. Data typed K.Wright.","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — khin.rice.uniformity","text":"Khin, San. 1950.   Investigation relative costs rice experiments based   efficiency designs.   Dissertation: Imperial College Tropical Agriculture (ICTA).   Appendix XV.   https://hdl.handle.net/2139/42422","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — khin.rice.uniformity","text":"None.","code":""},{"path":"/reference/khin.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — khin.rice.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(khin.rice.uniformity)   dat <- khin.rice.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE,           main=\"khin.rice.uniformity\",           aspect=(36*3)/(30*3)) # true aspect    } # }"},{"path":"/reference/kiesselbach.oats.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oats — kiesselbach.oats.uniformity","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"Uniformity trial oats Nebraska 1916.","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"","code":"data(\"kiesselbach.oats.uniformity\")"},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"data frame 207 observations following 3 variables. row row col column yield yield bu/ac","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"Experiment conducted 1916.  Crop Kerson oats. plot covered 1/30th acre.   Oats drilled plats 66 inches wide 16 rods long. drill   66 inches wide.  Plats separated space 16 inches   outside drill rows. source document includes three photographs field. 1 acre = 43560 sq feet 1/30 acre = 1452 sq feet = 16 rods * 16.5 ft/rod * 5.5 ft Field width: 3 plats * 16 rods/plat * 16.5 ft/rod = 792 feet Field length: 69 plats * 5.5 ft + 68 gaps * 1.33 feet = 469 feet","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"Kiesselbach, Theodore . (1917).   Studies Concerning Elimination Experimental Error Comparative Crop Tests.   University Nebraska Agricultural Experiment Station Research Bulletin . 13.   Pages 51-72.   https://archive.org/details/StudiesConcerningTheEliminationOfExperimentalErrorInComparativeCrop   https://digitalcommons.unl.edu/extensionhist/430/","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"None.","code":""},{"path":"/reference/kiesselbach.oats.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oats — kiesselbach.oats.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(kiesselbach.oats.uniformity)   dat <- kiesselbach.oats.uniformity      range(dat$yield) # 56.7 92.8 match Kiesselbach p 64.    libs(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, flip=TRUE, aspect=792/469, # true aspect           main=\"kiesselbach.oats.uniformity\")    } # }"},{"path":"/reference/kirk.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Variety trial of potatoes, highly replicated — kirk.potato","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"Variety trial potatoes, highly replicated","code":""},{"path":"/reference/kirk.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"","code":"data(\"kirk.potato\")"},{"path":"/reference/kirk.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"data frame 380 observations following 5 variables. row row ordinate col column ordinate rep replicate (block) gen genotype (variety) yield yield, pounds per plot","code":""},{"path":"/reference/kirk.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"highly-replicated variety trial potatoes planted 1924 check plots every 5th row.   Entries randomized.   rod rows planted series across field, rows spaced   five links apart (nearly 3.5 feet) 3.5 foot passes   series. replicates sometimes dis-jointed, really blocks.","code":""},{"path":"/reference/kirk.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"Kirk, L. E. C. H. Goulden (1925)   statistical observations yield test potato varieties.   Scientific Agriculture, 6, 89-97.   https://doi.org/10.4141/sa-1925-0088 (paywall)   https://www.google.com/books/edition/Canadian_Journal_of_Agriculture_Science/TgIkAQAAMAAJ","code":""},{"path":"/reference/kirk.potato.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"None","code":""},{"path":"/reference/kirk.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Variety trial of potatoes, highly replicated — kirk.potato","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(kirk.potato)   dat <- kirk.potato   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=1,           main=\"kirk.potato\")    # Match means in Table I   libs(dplyr)   dat  } # }"},{"path":"/reference/kling.augmented.html","id":null,"dir":"Reference","previous_headings":"","what":"Augmented design of meadowfoam — kling.augmented","title":"Augmented design of meadowfoam — kling.augmented","text":"Augmented design meadowfoam","code":""},{"path":"/reference/kling.augmented.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Augmented design of meadowfoam — kling.augmented","text":"","code":"data(\"kling.augmented\")"},{"path":"/reference/kling.augmented.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Augmented design of meadowfoam — kling.augmented","text":"data frame 68 observations following 7 variables. plot Plot number gen Genotype / Entry name Genotype name block Block, text tsw Thousand seed weight row Row ordinate col Column ordinate","code":""},{"path":"/reference/kling.augmented.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Augmented design of meadowfoam — kling.augmented","text":"experiment meadowfoam.   Blocks one direction, serpentine layout.   50 new genotypes 3 checks (C1=Ross, C2=OMF183,   C3=Starlight).   New genotypes 1 rep, checks 6 reps.   response variable thousand seed weight.","code":""},{"path":"/reference/kling.augmented.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Augmented design of meadowfoam — kling.augmented","text":"Jennifer Kling, \"Introduction Augmented Experimental Design\"   https://plant-breeding-genomics.extension.org/introduction--augmented-experimental-design/   Accessed May 2022.","code":""},{"path":"/reference/kling.augmented.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Augmented design of meadowfoam — kling.augmented","text":"None","code":""},{"path":"/reference/kling.augmented.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Augmented design of meadowfoam — kling.augmented","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kling.augmented) dat <- kling.augmented libs(desplot,lattice,lme4) # Layout and yields desplot(dat, tsw ~ col*row, text=name, cex=1.5)  # Mixed model, fixed blocks, random genotypes m1 <- lmer(tsw ~ block + (1|name), data=dat) ran1 <- ranef(m1, condVar=TRUE) ran1 dotplot(ran1) # Caterpillar plot } # }"},{"path":"/reference/kreusler.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"Growth maize plants Germany 1875-1878.","code":""},{"path":"/reference/kreusler.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"","code":"data(\"kreusler.maize\")"},{"path":"/reference/kreusler.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"data frame 165 observations following 17 variables. gen genotype year year date calendar date raindays number days rain per week (zahl der regenstage) rain rain amount (mm) temp temperature mean (deg C) (temperatur mittel) parentseed weight parent seed (g) (alte korner) roots weight roots (g) (wurzel) leaves weight leaves (g) (blatter) stem weight stem (g) (stengel) tassel weight tassel (g) (blutenstande) grain weight grain (korner) plantweight weight entire plant (ganze pflanze) plantheight plant height (cm) (mittlere hohe der pflanzen) leafcount number leaves (anzahl der blatter) leafarea leaf area (cm^2) (flachenmaass der blatter)","code":""},{"path":"/reference/kreusler.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"Experiments performed Poppelsdorf, Germany (near Bonn) years 1875 1878.  Observations collected weekly throughout growing season. Five varieties grown 1875. Two 1876, one 1877 1878. plants selected eye representative, number plants chosen decreasing growing season.  example, dry-weight data based following number plants: 1875 number sampled began 20 dropped 10. 1876 number sampled began 45 dropped 24. 1877 number sampled began 90 dropped 36. 1878 number sampled began 120 dropped 40. observations included fresh weight dry weight entire plants, along leaf area, date inflorescence, fertilization, kernel development. data Hornberger 71 Kreusler/Hornberger, complete. temperature data originally given degrees Reaumur 1875 1876, degrees Celsius 1877 1878.  temperatures data degrees Celsius.  Note: deg C = 1.25 deg R.  Briggs, Kidd & West (1920) give temperature Celsius.","code":""},{"path":"/reference/kreusler.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"1875-1876 data : . Prehn & G. Becker. (1878)   Jahresbericht fur Agrikultur-chemie, Vol 20, p. 216-220.   https://books.google.com/books?id=ZfxNAAAAYAAJ&pg=216 1877 data : . Kreusler, . Prehn, Hornberger. (1880)   Jahresbericht fur Agrikultur-Chemie, Vol 21, p 248.   https://books.google.com/books?id=U3IYAQAAIAAJ&pg=248 1878 data : U. Kreusler, . Prehn, R. Hornberger. (1880).   Jahresbericht fur Agrikultur-Chemie, Vol 22, p. 211.   https://books.google.com/books?id=9HIYAQAAIAAJ&pg=211 Dry plant weight leaf area genotypes years   repeated : G. E. Briggs, Franklin Kidd, Cyril West. (1920).   Quantitative Analysis Plant Growth. Part .   Annals Applied Biology, 7, 103-123. G. E. Briggs, Franklin Kidd, Cyril West. (1920).   Quantitative Analysis Plant Growth. Part II.   Annals Applied Biology, 7, 202-223.","code":""},{"path":"/reference/kreusler.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"Roderick Hunt, G. Clifford Evans. 1980.   Classical Data Growth Maize: Curve Fitting Statistical Analysis.   New Phytol, 86, 155-180.","code":""},{"path":"/reference/kreusler.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Growth of maize plants in Germany during 1875-1878 — kreusler.maize","text":"","code":"if (FALSE) { # \\dontrun{  data(kreusler.maize) dat <- kreusler.maize dat$date2 <- as.Date(dat$date,\"%d %b %Y\") dat$doy <- as.numeric(strftime(dat$date2, format=\"%j\"))  # Hunt & Evans Fig 2a libs(lattice) xyplot(log10(plantweight)~doy|factor(year), data=dat, group=gen,        type=c('p','smooth'), span=.4, as.table=TRUE,        xlab=\"Day of year\", main=\"kreusler.maize - growth of maize\",        auto.key=list(columns=5))  # Hunt & Evans Fig 2b xyplot(log10(plantweight)~doy|gen, data=dat, group=factor(year),        type=c('p','smooth'), span=.5, as.table=TRUE,        xlab=\"Day of year\",        auto.key=list(columns=4)) # Hunt & Evans Fig 3a xyplot(log10(leafarea)~doy|factor(year), data=dat, group=gen,        type=c('p','smooth'), span=.5, as.table=TRUE,        xlab=\"Day of year\",        auto.key=list(columns=5)) # Hunt & Evans Fig 3a xyplot(log10(leafarea)~doy|gen, data=dat, group=factor(year),        type=c('p','smooth'), span=.5, as.table=TRUE,        xlab=\"Day of year\",        auto.key=list(columns=4))  # All traits  xyplot(raindays~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(rain~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(temp~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(parentseed~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(roots~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(leaves~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(stem~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(grain~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(plantweight~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(plantheight~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(leafcount~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(leafarea~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) xyplot(tassel~doy|factor(year), data=dat, group=gen,        type='l', auto.key=list(columns=5), as.table=TRUE, layout=c(1,4)) } # }"},{"path":"/reference/kristensen.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — kristensen.barley.uniformity","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"Uniformity trial barley conducted Denmark, 1905.","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"","code":"data(\"kristensen.barley.uniformity\")"},{"path":"/reference/kristensen.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"data frame 718 observations following 3 variables. row row col column yield yield, hectograms/plot","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"Experiment conducted 1905 Askov, Denmark. Harvested plot size   10 x 14 'alen', 6.24 x 8.79 meters. soil uniform,   attack mildew spread adjacent field. Yield measured   hectograms/plot straw grain together. (Page 468). Orientation plots dimensions clear text,   aspect used example aligns well Kristensen   figure 1. Field width: 22 plots * 8.79 m Field length: 11 plots * 6.24 m Notes Kristensen: Fig 5 3x3 moving average, Fig 6   deviation trend, Fig 7 field average added   deviation.  Fig 13 another uniformity trial barley 1924, Fig   14 uniformity trial oats 1924.","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"R. K. Kristensen (1925).   Anlaeg og Opgoerelse af Markforsoeg.   Tidsskrift landbrugets planteavl, Vol 31, 464-494.   Fig 1, pg. 467.   https://dca.au.dk/publikationer/historiske/planteavl/","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"J. Neyman, K. Iwaszkiewicz, St. Kolodziejczyk. (1935).   Statistical Problems Agricultural Experimentation.   Supplement Journal Royal Statistical Society,   Vol. 2, . 2 (1935), pp. 107-180.   https://doi.org/10.2307/2983637","code":""},{"path":"/reference/kristensen.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — kristensen.barley.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(kristensen.barley.uniformity) dat <- kristensen.barley.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=(11*6.24)/(22*8.79),         main=\"kristensen.barley.uniformity\")    } # }"},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"Uniformity trial sorghum India, 3 years plots 1930-1932.","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"","code":"data(\"kulkarni.sorghum.uniformity\")"},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"data frame 480 observations following 4 variables. row row col column yield grain yield, tolas per plot year year","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"experiment conducted Sholapur district India   three consecutive years 1930-1932. One acre land (290 ft x 150 ft) chosen midst bigger area   (plot 13 Mohol Plot) sowing sorghum. harvested plots 1/160 acre   (72 ft 6 x 3 ft 9 ) containing three rows plants 15 . apart.   160 plots arranged forty rows four columns, yields   measured tolas. plot division kept intact three years,   yields 160 plots available three consecutive harvests. original   data given Appendix . Field width: 4 plots * 72.5 feet = 290 feet Field length: 40 plots * 3.75 feet = 150 feet Conclusions: \"Thus, highly narrow strips plots (length much greater breadth) lead   greater precision plots area much wider narrow.\" Correlation plots year years low.","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"Kulkarni, R. K., Bose, S. S., Mahalanobis, P. C.  (1936).   influence shape size plots effective precision field experiments sorghum.   Indian J. Agric. Sci., 6, 460-474. Appendix 1, page 172.   https://archive.org/details/.ernet.dli.2015.271737","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"None.","code":""},{"path":"/reference/kulkarni.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — kulkarni.sorghum.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(kulkarni.sorghum.uniformity) dat <- kulkarni.sorghum.uniformity  # match means on page 462 # tapply(dat$yield, dat$year, mean) #     1930     1931     1932  # 116.2875  67.2250 126.3688   libs(reshape2) libs(lattice) dmat <- acast(dat, row+col ~ year, value.var=\"yield\") splom(dmat, main=\"kulkarni.sorghum.uniformity\") cor(dmat)  libs(desplot) desplot(dat, yield ~ col*row|year,         flip=TRUE, aspect=150/290,         main=\"kulkarni.sorghum.uniformity\")    } # }"},{"path":"/reference/lambert.soiltemp.html","id":null,"dir":"Reference","previous_headings":"","what":"Average monthly soil temperature near Zurich — lambert.soiltemp","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"Average monthly soil temperature near Zurich, seven depths,   averaged four years.","code":""},{"path":"/reference/lambert.soiltemp.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"data frame 84 observations following 3 variables. month month depth depth soil (feet) temp temperature (units \"du Crest\")","code":""},{"path":"/reference/lambert.soiltemp.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"one earliest time series scientific literature. data show monthly soil temperature near Zurich, averaged   four years (beginning 1762), 7 different depths. temperature measurements related 'du Crest' scale.   (measurements seem exactly according du Crest   scale.  can read German, use Google books link see   can figure .)  Even scale Lambert's graph   match data. Greater depths show less variation greater lag temperature   responsiveness air temperature. data also appears Pedometrics, issue 23, December 2007.  ,   formula converting temperature make sense   data Table 1 directly match corresponding figure.","code":""},{"path":"/reference/lambert.soiltemp.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"Johann Heinrich Lambert (1779), Pyrometrie.  Page 358.   https://books.google.com/books?id=G5I_AAAAcAAJ&pg=PA358 Graph: https://www.fisme.science.uu.nl/wiskrant/artikelen/hist_grafieken/begin/images/pyrometrie.gif","code":""},{"path":"/reference/lambert.soiltemp.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Average monthly soil temperature near Zurich — lambert.soiltemp","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) # Reproduce Lambert figure 39.  data(lambert.soiltemp) dat <- lambert.soiltemp  # Make 3 cycles of the data so that the loess line bends back up at # month 1 and month 12 dat <- rbind(dat, transform(dat, month=month-12),              transform(dat, month=month+12)) libs(lattice) xyplot(temp ~ month, dat, group=depth, type=c('p','smooth'),        main=\"lambert.soiltemp\",        xlim=c(-3,15), ylab=\"Soil temperature (du Crest) at depth (feet)\",        span=.2, auto.key=list(columns=4))  # To do: Find a good model for this data } # }"},{"path":"/reference/lander.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"Uniformity trials wheat chari, 4 years land, India.","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"","code":"data(\"lander.multi.uniformity\")"},{"path":"/reference/lander.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"data frame 780 observations following 5 variables. row row col column yield yield, maunds per plot year year crop crop","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"Note, \"chari\" paper Andropogon Sorghum, \"wheat\"   Triticum vulgare. Uniformity trials carried Rawalpindi, India. area consisted 5 fields (D4,D5,D6,D7,D8), 5 acres   size. 5 fields divided three sub-divisions ,   B, C, means two strong bunds 5 feet wide. 3   sub-divisions divided 5 blocks, consisting 13   experimental plots 14 non-experiment strips 5 feet wide   separating plots . dimensions plot   207 ft 5 19 ft 1 . land used 4 consecutive crops. first crop   wheat, followed chari (sorghum), followed wheat 2 times. Field width: 207.42 * 5 plots = 1037.1 feet Field length: (19.08+5)*39 rows = 939.12 feet Conclusions: evident, therefore, soil heterogenity   revealed one  crop true index subsequent   behavior area respect crops. Even crop   raised different seasons shown constancy regards   soil heterogeneity.","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"Lander, P. E. et al. (1938).   Soil Uniformity Trials Punjab .   Ind. J. Agr. Sci. 8:271-307.","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"None","code":""},{"path":"/reference/lander.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of wheat and chari, 4 years on the same land. — lander.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lander.multi.uniformity) dat <- lander.multi.uniformity  # Yearly means, similar to Lander table 7 ## filter(dat)  ## 1 1929   18.1 ## 2 1930   58.3 ## 3 1931   22.8 ## 4 1932   14.1  # heatmaps for all years libs(desplot) dat$year <- factor(dat$year) desplot(dat, yield ~ col*row|year,         flip=TRUE, aspect=(1037.1/939.12),         main=\"lander.multi.uniformity\")  } # }"},{"path":"/reference/lasrosas.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Yield monitor data corn field Argentina variable nitrogen.","code":""},{"path":"/reference/lasrosas.corn.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"","code":"data(\"lasrosas.corn\")"},{"path":"/reference/lasrosas.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"data frame 3443 observations following 8 variables. year year, 1999 2001 lat latitude long longitude yield yield, quintals/ha nitro nitrogen fertilizer, kg/ha topo topographic factor bv brightness value (proxy low organic matter content) rep rep factor nf nitrogen factor, N0-N4","code":""},{"path":"/reference/lasrosas.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Corn yield nitrogen fertilizer treatment field characteristics   Las Rosas farm, Rio Cuarto, Cordoba, Argentina. Data 6 nitro treatments, 3 reps, strips. Data collected using yield monitor, harvests 1999 2001. points within long strip averaged   distance points _within_ strip distance   _between_ strips (9.8 meters). topographic factor factor levels W = West slope, HT =   Hilltop, E = East slope, LO = Low East. 'rep' factor data added hand appear   original data. Slightly different levels nitrogen used two years,   nitrogen factor 'nf' created common levels across   years. Published descriptions data describe experiment design   randomized nitrogen treatments.  nitrogen treatments   randomized within one rep, randomization used   two reps. Anselin et al. used corn grain price $6.85/quintal nitrogen   cost $0.4348/kg. corners field 1999 :   https://www.google.com/maps/place/-33.0501258,-63.8488636   https://www.google.com/maps/place/-33.05229635,-63.84181819 Anselin et al. found significant response nitrogen slope.   However, Bongiovanni Lowenberg-DeBoer (2002) found slope   position significant 2001. Used permission ASU GeoDa Center.","code":""},{"path":"/reference/lasrosas.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Las Rosas data files obtained   https://geodacenter.asu.edu/sdata   converted ESRI shape files flat data.frame.","code":""},{"path":"/reference/lasrosas.corn.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"Bongiovanni Lowenberg-DeBoer (2000).   Nitrogen management corn spatial regression model.   Proceedings Fifth International Conference Precision   Agriculture. Anselin, L., R. Bongiovanni, J. Lowenberg-DeBoer (2004).   spatial econometric approach economics site-specific   nitrogen management corn production.   American Journal Agricultural Economics, 86, 675–687.   https://doi.org/10.1111/j.0002-9092.2004.00610.x Lambert, Lowenberg-Deboer, Bongiovanni (2004).   Comparison Four Spatial Regression Models Yield Monitor Data:   Case Study Argentina.   Precision Agriculture, 5, 579-600.   https://doi.org/10.1007/s11119-004-6344-3 Suman Rakshit, Adrian Baddeley, Katia Stefanova, Karyn Reeves, Kefei   Chen, Zhanglong Cao, Fiona Evans, Mark Gibberd (2020).   Novel approach analysis spatially-varying treatment effects   -farm experiments.   Field Crops Research, 255, 15 September 2020, 107783.   https://doi.org/10.1016/j.fcr.2020.107783","code":""},{"path":"/reference/lasrosas.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield monitor data for a corn field in Argentina with variable nitrogen. — lasrosas.corn","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lasrosas.corn) dat <- lasrosas.corn  # yield map libs(lattice,latticeExtra)  # for panel.levelplot.points redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(yield ~ long*lat|factor(year), data=dat,            main=\"lasrosas.corn grain yield\", xlab=\"Longitude\", ylab=\"Latitude\",           scales=list(alternating=FALSE),           prepanel = prepanel.default.xyplot,           panel = panel.levelplot.points,           type = c(\"p\", \"g\"), aspect = \"iso\", col.regions=redblue)   d1 <- subset(dat, year==1999)  # Experiment design xyplot(lat~long, data=d1, col=as.numeric(as.factor(d1$nitro)), pch=d1$topo,        main=\"lasrosas.corn experiment layout 1999\")  # A quadratic response to nitrogen is suggested xyplot(yield~nitro|topo, data=d1, type=c('p','smooth'), layout=c(4,1),        main=\"lasrosas.corn yield by topographic zone 1999\")  # Full-field quadratic response to nitrogen.  Similar to Bongiovanni 2000, # table 1. m1 <- lm(yield ~ 1 + nitro + I(nitro^2), data=d1, subset=year==1999) coef(m1)  } # }"},{"path":"/reference/lavoranti.eucalyptus.html","id":null,"dir":"Reference","previous_headings":"","what":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"Height Eucalyptus trees southern Brazil","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"data frame 490 observations following 4 variables. gen genotype (progeny) factor origin origin progeny loc location height height, meters","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"genotypes originated three different locations Queensland,   Australia, tested southern Brazil.  experiment   conducted randomized complete block design 6 plants per plot   10 blocks.  Mean tree height reported. testing locations described following table: Arciniegas-Alarcon (2010) used 'Ravenshoe' subset data   illustrate imputation missing values.","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"O J Lavoranti (2003). Estabilidade e adaptabilidade fenotipica   atraves da reamostragem bootstrap modelo AMMI, PhD thesis,   University Sao Paulo, Brazil.","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"Arciniegas-Alarcon, S. Garcia-Pena, M. dos Santos Dias,   C.T. Krzanowski, W.J. (2010). alternative methodology   imputing missing data trials genotype--environment   interaction, Biometrical Letters, 47, 1-14.   https://doi.org/10.2478/bile-2014-0006","code":""},{"path":"/reference/lavoranti.eucalyptus.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Height of Eucalyptus trees in southern Brazil — lavoranti.eucalyptus","text":"","code":"if (FALSE) { # \\dontrun{  # Arciniegas-Alarcon et al use SVD and regression to estimate missing values. # Partition the matrix X as a missing value xm, row vector xr1, column # vector xc1, and submatrix X11 # X = [ xm  xr1 ] #     [ xc1 X11 ] and let X11 = UDV'. # Estimate the missing value xm = xr1 V D^{-1} U' xc1  data(lavoranti.eucalyptus) dat <- lavoranti.eucalyptus  libs(lattice) levelplot(height~loc*gen, dat, main=\"lavoranti.eucalyptus - GxE heatmap\")  dat <- droplevels(subset(dat, origin==\"Ravenshoe\")) libs(reshape2) dat <- acast(dat, gen~loc, value.var='height')  dat[1,1] <- NA x11 <- dat[-1,][,-1] X11.svd <- svd(x11) xc1 <- dat[-1,][,1] xr1 <- dat[,-1][1,] xm <- xr1  xm # = 18.29, Original value was 17.4  } # }"},{"path":"/reference/laycock.tea.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of tea — laycock.tea.uniformity","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Uniformity trials tea","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"","code":"data(\"laycock.tea.uniformity\")"},{"path":"/reference/laycock.tea.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"data frame 54 observations following 4 variables. loc location, L1 L2 row row col column yield yield (pounds)","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Actual physical dimensions tea shrubs given, use   estimate four feet square shrub (similar   eden.tea.uniformity experiment). Location 1 (Laycock, page 108) Research Station,   Nyasaland. Plots 10 15 bushes, harvested 23 times 1942. Field length: 8 plots * 10 bushes * 4 feet = 320 feet. Field width: 4 plots * 15 bushes * 4 feet = 240 feet. Location 2 (Laycock page 110) Mianga Estate, Nyasaland. Plots   9 11 bushes, harvested 18 times 1951/52. Field length: 9 plots * 9 bushes * 4 feet = 324 feet. Field width: 6 plots * 11 bushes * 4 feet = 264 feet.","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Laycock, D. H. (1955).   effect plot shape reducing errors tea experiments.   Tropical Agriculture, 32, 107-114.","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"Zimmerman, Dale L., David . Harville. (1991).   random field approach analysis field-plot experiments   spatial experiments.   Biometrics, 47, 223-239.","code":""},{"path":"/reference/laycock.tea.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of tea — laycock.tea.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(laycock.tea.uniformity) dat <- laycock.tea.uniformity  libs(desplot) desplot(dat, yield ~ col*row|loc,         flip=TRUE, aspect=322/252, # average of 2 locs         main=\"laycock.tea.uniformity\")  } # }"},{"path":"/reference/lee.potatoblight.html","id":null,"dir":"Reference","previous_headings":"","what":"Repeated measurements of resistance to potato blight — lee.potatoblight","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"Repeated measurements resistance potato blight.","code":""},{"path":"/reference/lee.potatoblight.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"","code":"data(\"lee.potatoblight\")"},{"path":"/reference/lee.potatoblight.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"data frame 14570 observations following 7 variables. year planting year gen genotype / cultivar factor col column row row rep replicate block (numeric) date date data collection y score 1-9 blight resistance","code":""},{"path":"/reference/lee.potatoblight.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"data werre collected biennial screening trials conducted New Zealand Institute Crop Food Research Pukekohe Field Station.  trials evaluate resistance potato cultivars late blight caused fungus Phytophthora infestans. trial, damage necrotic tissue rated 1-9 scale multiple time points growing season. Lee (2009) used Bayesian model extends ordinal regression McCullagh include spatial variation sigmoid logistic curves model time dependence repeated measurements plot. Data 1989 included due different trial setup used.  trials  laid latinized row-column designs 4 5 reps.  plot consisted four seed tubers planted two Ilam Hardy spread plants single row 2 meters long 76 centimeter spacing rows. 1997, 18 plots lost due flooding. 2001, end season plants nearly dead. Note, plant-breeding, common use \"breeder code\" genotype, several years testing changed registered commercial variety name. R package, Potato Pedigree Database, https://www.plantbreeding.wur.nl/potatopedigree/reverselookup.php, used change breeder codes (early testing) variety names used later testing.  example, among changes made following: Used permission Arier Chi-Lun Lee John Anderson. Data retrieved   https://researchspace.auckland.ac.nz/handle/2292/5240. Licensed via Open Database License 1.0. (allows sub-licensing).   See: https://opendatacommons.org/licenses/dbcl/1.0/","code":""},{"path":"/reference/lee.potatoblight.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"Lee, Arier Chi-Lun (2009).   Random effects models ordinal data.   Ph.D. thesis, University Auckland.   https://researchspace.auckland.ac.nz/handle/2292/4544.","code":""},{"path":"/reference/lee.potatoblight.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Repeated measurements of resistance to potato blight — lee.potatoblight","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lee.potatoblight) dat <- lee.potatoblight  # Common cultivars across years. # Based on code from here: https://stackoverflow.com/questions/20709808 gg <- tapply(dat$gen, dat$year, function(x) as.character(unique(x))) tab <- outer(1:11, 1:11,              Vectorize(function(a, b) length(Reduce(intersect, gg[c(a, b)])))) head(tab) # Matches Lee page 27. ##      [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11] ## [1,]   20   10    7    5    3    2    3    2    3     3     2 ## [2,]   10   30   17    5    4    3    4    4    5     4     2 ## [3,]    7   17   35    9    6    3    4    5    6     4     3 ## [4,]    5    5    9   35   16    8    9   14   15    13    11 ## [5,]    3    4    6   16   40   12   11   18   18    16    14   # Note the progression to lower scores as time passes in each year skp <- c(rep(0,10),          rep(0,7),1,1,1,          rep(0,8),1,1,          rep(0,6),1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,6),1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,5),1,1,1,1,1,          rep(0,5),1,1,1,1,1)  libs(desplot) desplot(dat, y ~ col*row|date,         ylab=\"Year of testing\", # unknown aspect         layout=c(10,11),skip=as.logical(skp),         main=\"lee.potatoblight - maps of blight resistance over time\")   # 1983 only.  I.Hardy succumbs to blight quickly libs(lattice) xyplot(y ~ date|gen, dat, subset=year==1983, group=rep,        xlab=\"Date\", ylab=\"Blight resistance score\",        main=\"lee.potatoblight 1983\", as.table=TRUE,        auto.key=list(columns=5),        scales=list(alternating=FALSE, x=list(rot=90, cex=.7))) } # }"},{"path":"/reference/lehmann.millet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of millet in India — lehmann.millet.uniformity","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Uniformity trial millet India, 3 years land.","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"","code":"data(\"lehmann.millet.uniformity\")"},{"path":"/reference/lehmann.millet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"data frame 396 observations following 5 variables. year year plot plot (row) range range (column) yield grain yield (pounds) total total crop yield (pounds)","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Experiment farm near Bangalore. plots 1/10 acre, 50 links   wide 200 links long. [6th report, p. 2]. middle part   field occupied buildings. 6th report:   Map (partially scanned pdf).   \"part dry lands nearest tank, quite   uniform remainder, already excluded experimental ground proper\". 7th report:   P. 12 (pdf page 233) grain/straw yield 1905. 9th report:   P. 1-10 comments.   P. 36-39 data: Table 1 grain yield, table 2 total yield   grain straw. Columns , left-right, -F. Rows , top-bottom,   1-22. season 1906 abnormally wet compared 1905 1907. [9th report] Field width: 6 plots * 200 links Field length: 22 plots * 50 links","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Lehmann, .   Ninth Annual Report Agricultural Chemist Year 1907-08.   Department Agriculture, Mysore State.   [2nd-9th] Annual Report Agricultural Chemist.   https://books.google.com/books?id=u_dHAAAAYAAJ","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"Theodor Roemer (1920).   Der Feldversuch. Page 69, table 13.","code":""},{"path":"/reference/lehmann.millet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of millet in India — lehmann.millet.uniformity","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(lehmann.millet.uniformity)   dat <- lehmann.millet.uniformity    libs(desplot)   dat$year = factor(dat$year)   desplot(dat, yield ~ range*plot|year,           aspect=(22*50)/(6*200),           main=\"lehmann.millet.uniformity\",           flip=TRUE, tick=TRUE)   desplot(dat, total ~ range*plot|year,           aspect=(22*50)/(6*200),           main=\"lehmann.millet.uniformity\",           flip=TRUE, tick=TRUE)      # libs(dplyr)   # group_by(dat, year)  } # }"},{"path":"/reference/lehner.soybeanmold.html","id":null,"dir":"Reference","previous_headings":"","what":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Yield, white mold, sclerotia soybeans Brazil","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"","code":"data(\"lehner.soybeanmold\")"},{"path":"/reference/lehner.soybeanmold.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"data frame 382 observations following 9 variables. study study number year year harvest loc location name elev elevation region region trt treatment number yield crop yield, kg/ha mold white mold incidence, percent sclerotia weight sclerotia g/ha","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Data mean 4 reps. Original source (Portuguese)   https://ainfo.cnptia.embrapa.br/digital/bitstream/item/101371/1/Ensaios-cooperativos-de-controle-quimico-de-mofo-branco-na-cultura-da-soja-safras-2009--2012.pdf Data included via GPL3 license.","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Lehner, M. S., Pethybridge, S. J., Meyer, M. C., & Del Ponte,   E. M. (2016).   Meta-analytic modelling incidence-yield   incidence-sclerotial production relationships soybean white mould   epidemics.   Plant Pathology. doi:10.1111/ppa.12590","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"Full commented code analysis   https://emdelponte.github.io/paper-white-mold-meta-analysis/","code":""},{"path":"/reference/lehner.soybeanmold.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yield, white mold, and sclerotia for soybeans in Brazil — lehner.soybeanmold","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lehner.soybeanmold) dat <- lehner.soybeanmold  if(0){   op <- par(mfrow=c(2,2))   hist(dat$mold, main=\"White mold incidence\")   hist(dat$yield, main=\"Yield\")   hist(dat$sclerotia, main=\"Sclerotia weight\")   par(op) }  libs(lattice) xyplot(yield ~ mold|study, dat, type=c('p','r'),        main=\"lehner.soybeanmold\") # xyplot(sclerotia ~ mold|study, dat, type=c('p','r'))  # meta-analysis. Could use metafor package to construct the forest plot, # but latticeExtra is easy; ggplot is slow/clumsy libs(latticeExtra, metafor) # calculate correlation & confidence for each loc cors <- split(dat, dat$study) cors <- sapply(cors,                FUN=function(X){                  res <- cor.test(X$yield, X$mold)                  c(res$estimate, res$parameter[1],                    conf.low=res$conf.int[1], conf.high=res$conf.int[2])                }) cors <- as.data.frame(t(as.matrix(cors))) cors$study <- rownames(cors) # Fisher Z transform cors <- transform(cors, ri = cor) cors <- transform(cors, ni = df + 2) cors <- transform(cors,                   yi = 1/2 * log((1 + ri)/(1 - ri)),                   vi = 1/(ni - 3)) # Overall correlation across studies overall <- rma.uni(yi, vi, method=\"ML\", data=cors) # metafor package # back transform overall <- predict(overall, transf=transf.ztor)  # weight and size for forest plot wi    <- 1/sqrt(cors$vi) size  <- 0.5 + 3.0 * (wi - min(wi))/(max(wi) - min(wi))  # now the forest plot # must use latticeExtra::layer in case ggplot2 is also loaded segplot(factor(study) ~ conf.low+conf.high, data=cors,         draw.bands=FALSE, level=size, centers=ri, cex=size,         col.regions=colorRampPalette(c(\"gray85\", \"dodgerblue4\")),         main=\"White mold vs. soybean yield\",         xlab=paste(\"Study correlation, confidence, and study weight (blues)\\n\",                    \"Overall (black)\"),         ylab=\"Study ID\") +   latticeExtra::layer(panel.abline(v=overall$pred, lwd=2)) +   latticeExtra::layer(panel.abline(v=c(overall$cr.lb, overall$cr.ub), lty=2, col=\"gray\"))   # Meta-analyses are typically used when the original data is not available. # Since the original data is available, a mixed model is probably better. libs(lme4) m1 <- lmer(yield ~ mold # overall slope            + (1+mold |study), # random intercept & slope per study            data=dat) summary(m1)  } # }"},{"path":"/reference/lessman.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — lessman.sorghum.uniformity","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"Uniformity trial sorghum Ames, Iowa, 1959.","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"","code":"data(\"lessman.sorghum.uniformity\")"},{"path":"/reference/lessman.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"data frame 2640 observations following 3 variables. row row col column yield yield, ounces","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"uniformity trial conducted Agronomy Farm Ames, Iowa,   1959.  field planted grain sorghum rows spaces 40   inches apart, thinned stand three inches plants.    entire field 48 rows (40 inches apart), 300 feet long   harvested 5-foot lengths.  Threshed grain dried 8-10 percent   moisture weighing. Weights ounces.  Average yield   field 95.3 bu/ac. Field width: 48 rows * 40 inches / 12in/ft = 160 feet Field length: 60 plots * 5 feet = 300 feet Plot yields two outer rows side field   omitted analysis. CV values data quite match Lessman's value.    first page Table 17 manually checked correctness   problems optical character recognition (  obvious errors like 0/o).","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"Lessman, Koert James (1962).   Comparisons methods testing grain yield sorghum.   Iowa State University.   Retrospective Theses Dissertations. Paper 2063. Appendix Table 17.   https://lib.dr.iastate.edu/rtd/2063","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"None.","code":""},{"path":"/reference/lessman.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — lessman.sorghum.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(lessman.sorghum.uniformity)   dat <- lessman.sorghum.uniformity      libs(desplot)   desplot(dat, yield ~ col*row,           aspect=300/160, tick=TRUE, flip=TRUE, # true aspect           main=\"lessman.sorghum.uniformity\")    # Omit outer two columns (called 'rows' by Lessman)   dat <- subset(dat, col > 2 & col < 47)   nrow(dat)   var(dat$yield) # 9.09   sd(dat$yield)/mean(dat$yield) # CV 9.2    libs(reshape2)   libs(agricolae)   dmat <- acast(dat, row~col, value.var='yield')   index.smith(dmat,               main=\"lessman.sorghum.uniformity\",               col=\"red\") # Similar to Lessman Table 1   # Lessman said that varying the width of plots did not have an appreciable   # effect on CV, and optimal row length was 3.2 basic plots, about 15-20    } # }"},{"path":"/reference/li.millet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of millet — li.millet.uniformity","title":"Uniformity trial of millet — li.millet.uniformity","text":"Uniformity trial millet China 1934.","code":""},{"path":"/reference/li.millet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of millet — li.millet.uniformity","text":"data frame 600 observations following 3 variables. row row col column yield yield (grams)","code":""},{"path":"/reference/li.millet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of millet — li.millet.uniformity","text":"Crop date estimated 1934. Field 100 ft x 100 ft.  Plots 15 feet long 1 foot wide. Field width: 100 plots * 1 foot = 100 feet Field length: 6 plots * 15 feet = 100 feet Li found efficient use land obtained plats 15   feet long two rowss wide.  Also satisfactory one row 30   feet long.","code":""},{"path":"/reference/li.millet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of millet — li.millet.uniformity","text":"Li, HW Meng, CJ Liu, TN. 1936.   Field Results Millet Breeding Experiment.   Agronomy Journal, 28, 1-15.  Table 1.   https://doi.org/10.2134/agronj1936.00021962002800010001x","code":""},{"path":"/reference/li.millet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of millet — li.millet.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(li.millet.uniformity)   dat <- li.millet.uniformity    mean(dat$yield) # matches Li et al.      libs(desplot)   desplot(dat, yield~col*row,           aspect=100/100, # true aspect           main=\"li.millet.uniformity\")    } # }"},{"path":"/reference/libs.html","id":null,"dir":"Reference","previous_headings":"","what":"Load multiple packages and install if needed — libs","title":"Load multiple packages and install if needed — libs","text":"Install load packages \"fly\".","code":""},{"path":"/reference/libs.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Load multiple packages and install if needed — libs","text":"","code":"libs(...)"},{"path":"/reference/libs.html","id":"arguments","dir":"Reference","previous_headings":"","what":"Arguments","title":"Load multiple packages and install if needed — libs","text":"... Comma-separated unquoted package names","code":""},{"path":"/reference/libs.html","id":"value","dir":"Reference","previous_headings":"","what":"Value","title":"Load multiple packages and install if needed — libs","text":"None","code":""},{"path":"/reference/libs.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Load multiple packages and install if needed — libs","text":"'agridat' package uses dozens packages examples dataset. 'libs' function provides simple way load multiple packages , can install missing packages --fly. similar `pacman::p_load` function.","code":""},{"path":"/reference/libs.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Load multiple packages and install if needed — libs","text":"None","code":""},{"path":"/reference/libs.html","id":"author","dir":"Reference","previous_headings":"","what":"Author","title":"Load multiple packages and install if needed — libs","text":"Kevin Wright","code":""},{"path":"/reference/libs.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Load multiple packages and install if needed — libs","text":"","code":"if (FALSE) { # \\dontrun{ libs(dplyr,reshape2) } # }"},{"path":"/reference/lillemo.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"Resistance wheat powdery mildew","code":""},{"path":"/reference/lillemo.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"","code":"data(\"lillemo.wheat\")"},{"path":"/reference/lillemo.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"data frame 408 observations following 4 variables. gen genotype, 24 levels env environrment, 13 levels score score scale scale used score","code":""},{"path":"/reference/lillemo.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"data means across reps original scores.  Lower scores   indicate better resistance mildew. location used one four different measurement scales   scoring resistance powdery mildew: 0-5 scale, 1-9 scale, 0-9 scale,   percent. Environment codes consist two letters location name two   digits year testing.  Location names: CA=Cruz Alta,   Brazil. Ba= Bawburgh, UK. Aa=, Norway. Ha=Hamar, Norway. Ch=Choryn,   Poland. Ce=Cerekwica, Poland. Ma=Martonvasar, Hungary. Kh=Kharkiv,   Ukraine. BT=Bila Tserkva, Ukraine. Gl=Glevakha, Ukraine. Bj=Beijing,   China. Note, Lillemo et al. remove genotype effects customary   calculating Huehn's non-parametric stability statistics. examples , results quite match   results Lillemo.  easily result original   data table rounded 1 decimal place.  example, environment   'Aa03' 3 reps mean genotype 1 probably 16.333,   16.3. Used permission Morten Lillemo. Electronic data supplied Miroslav Zoric.","code":""},{"path":"/reference/lillemo.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"Morten Lillemo, Ravi Sing, Maarten van Ginkel. (2011).   Identification Stable Resistance Powdery Mildew Wheat Based   Parametric Nonparametric Methods   Crop Sci. 50:478-485.   https://doi.org/10.2135/cropsci2009.03.0116","code":""},{"path":"/reference/lillemo.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"None.","code":""},{"path":"/reference/lillemo.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat susceptibile to powdery mildew — lillemo.wheat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lillemo.wheat) dat <- lillemo.wheat  # Change factor levels to match Lillemo dat$env <- as.character(dat$env) dat$env <- factor(dat$env,                   levels=c(\"Bj03\",\"Bj05\",\"CA03\",\"Ba04\",\"Ma04\",                            \"Kh06\",\"Gl05\",\"BT06\",\"Ch04\",\"Ce04\",                            \"Ha03\",\"Ha04\",\"Ha05\",\"Ha07\",\"Aa03\",\"Aa04\",\"Aa05\")) # Interesting look at different measurement scales by environment libs(lattice) qqmath(~score|env, dat, group=scale,        as.table=TRUE, scales=list(y=list(relation=\"free\")),        auto.key=list(columns=4),        main=\"lillemo.wheat - QQ plots by environment\")     # Change data to matrix format   libs(reshape2)   datm <- acast(dat, gen~env, value.var='score')      # Environment means. Matches Lillemo Table 3   apply(datm, 2, mean)      # Two different transforms within envts to approximate 0-9 scale   datt <- datm   datt[,\"CA03\"] <- 1.8 * datt[,\"CA03\"]   ix <- c(\"Ba04\",\"Kh06\",\"Gl05\",\"BT06\",\"Ha03\",\"Ha04\",\"Ha05\",\"Ha07\",\"Aa03\",\"Aa04\",\"Aa05\")   datt[,ix] <- apply(datt[,ix],2,sqrt)    # Genotype means of transformed data. Matches Lillemo table 3.   round(rowMeans(datt),2)    # Biplot of transformed data like Lillemo Fig 2   libs(gge)   biplot(gge(datt, scale=FALSE), main=\"lillemo.wheat\")      # Median polish of transformed table   m1 <- medpolish(datt)   # Half-normal prob plot like Fig 1   # libs(faraway)   # halfnorm(abs(as.vector(m1$resid)))    # Nonparametric stability statistics. Lillemo Table 4.   huehn <- function(mat){     # Gen in rows, Env in cols       nenv <- ncol(mat)     # Corrected yield. Remove genotype effects     # Remove the following line to match Table 4 of Lillemo     mat <- sweep(mat, 1, rowMeans(mat)) + mean(mat)     # Ranks in each environment     rmat <- apply(mat, 2, rank)          # Mean genotype rank across envts     MeanRank <- apply(rmat, 1, mean)          # Huehn S1     gfun <- function(x){       oo <- outer(x,x,\"-\")       sum(abs(oo)) # sum of all absolute pairwise differences     }     S1 <- apply(rmat, 1, gfun)/(nenv*(nenv-1))          # Huehn S2     S2 <- apply((rmat-MeanRank)^2,1,sum)/(nenv-1)          out <- data.frame(MeanRank,S1,S2)     rownames(out) <- rownames(mat)     return(out)   }   round(huehn(datm),2) # Matches table 4      # I do not think phenability package gives correct values for S1   # libs(phenability)   # nahu(datm)    } # }"},{"path":"/reference/lin.superiority.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"Multi-environment trial 33 barley genotypes 12 locations","code":""},{"path":"/reference/lin.superiority.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"","code":"data(\"lin.superiority\")"},{"path":"/reference/lin.superiority.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"data frame 396 observations following 4 variables. gen genotype/cultivar region region loc location yield yield (kg/ha)","code":""},{"path":"/reference/lin.superiority.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"Yield six-row barley 1983 annual report Eastern   Cooperative Test Canada. named cultivars Bruce, Conquest, Laurier, Leger checks,   cultivars tests.","code":""},{"path":"/reference/lin.superiority.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"C. S. Lin, M. R. Binns (1985).   Procedural approach assessing cultivar-location data: Pairwise genotype-environment interactions test cultivars checks   Canadian Journal Plant Science, 1985, 65(4): 1065-1071. Table 1.   https://doi.org/10.4141/cjps85-136","code":""},{"path":"/reference/lin.superiority.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"C. S. Lin, M. R. Binns (1988).   Superiority Measure Cultivar Performance Cultivar x Location Data.   Canadian Journal Plant Science, 68, 193-198.   https://doi.org/10.4141/cjps88-018 Mohammed Ali Hussein, Asmund Bjornstad, . H. Aastveit (2000).   SASG x ESTAB: SAS Program Computing Genotype x Environment   Stability Statistics.   Agronomy Journal, 92; 454-459.   https://doi.org/10.2134/agronj2000.923454x","code":""},{"path":"/reference/lin.superiority.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of 33 barley genotypes in 12 locations — lin.superiority","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lin.superiority) dat <- lin.superiority  libs(latticeExtra) libs(reshape2) # calculate the superiority measure of Lin & Binns 1988  dat2 <- acast(dat, gen ~ loc, value.var=\"yield\") locmean <- apply(dat2, 2, mean) locmax <- apply(dat2, 2, max) P <- apply(dat2, 1, function(x) {   sum((x-locmax)^2)/(2*length(x)) })/1000 P <- sort(P) round(P) # match Lin & Binns 1988 table 2, column Pi  # atlantic & quebec regions overlap # libs(gge) # m1 <- gge(dat, yield ~ gen*loc, env.group=region, #           main=\"lin.superiority\") # biplot(m1)  # create a figure similar to Lin & Binns 1988  # add P, locmean, locmax back into the data dat$locmean <- locmean[match(dat$loc, names(locmean))] dat$locmax <- locmax[match(dat$loc, names(locmax))] dat$P <- P[match(dat$gen, names(P))] dat$gen <- reorder(dat$gen, dat$P) xyplot(locmax ~ locmean|gen, data=dat,        type=c('p','r'), as.table=TRUE, col=\"gray\",        main=\"lin.superiority - Superiority index\",        xlab=\"Location Mean\",        ylab=\"Yield of single cultivars (blue) & Maximum (gray)\") +   xyplot(yield ~ locmean|gen, data=dat,          type=c('p','r'), as.table=TRUE, pch=19)  } # }"},{"path":"/reference/lin.unbalanced.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"Multi-environment trial 33 barley genotypes 18 locations","code":""},{"path":"/reference/lin.unbalanced.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"","code":"data(\"lin.unbalanced\")"},{"path":"/reference/lin.unbalanced.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"data frame 405 observations following 4 variables. gen genotype/cultivar loc location yield yield (kg/ha) region region","code":""},{"path":"/reference/lin.unbalanced.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"Yield six-row barley 1986 Eastern Cooperative trial named cultivars Bruce, Laurier, Leger checks,   cultivars tests. Cultivar names use following codes: \"\" Atlantic-Quebec. \"O\" \"Ontario\". \"S\" second-year. \"T\" third-year.","code":""},{"path":"/reference/lin.unbalanced.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"C. S. Lin, M. R. Binns (1988).   Method Assessing Regional Trial Data Test Cultivars   Unbalanced Respect Locations.   Canadian Journal Plant Science, 68(4): 1103-1110.   https://doi.org/10.4141/cjps88-130","code":""},{"path":"/reference/lin.unbalanced.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"None","code":""},{"path":"/reference/lin.unbalanced.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of 33 barley genotypes in 18 locations — lin.unbalanced","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lin.unbalanced) dat <- lin.unbalanced  # location maximum, Lin & Binns table 1 # aggregate(yield ~ loc, data=dat, FUN=max)  # location mean/index, Lin & Binns, table 1 dat2 <- subset(dat, is.element(dat$gen,   c('Bruce','Laurier','Leger','S1','S2',     'S3','S4','S5','S6','S7','T1','T2'))) aggregate(yield ~ loc, data=dat2, FUN=mean)  libs(reshape2) dat3 <- acast(dat, gen ~ loc, value.var=\"yield\") libs(lattice) lattice::levelplot(t(scale(dat3)), main=\"lin.unbalanced\", xlab=\"loc\", ylab=\"genotype\")  # calculate the superiority measure of Lin & Binns 1988. # lower is better locmax <- apply(dat3, 2, max, na.rm=TRUE) P <- apply(dat3, 1, function(x) {   sum((x-locmax)^2, na.rm=TRUE)/(2*length(na.omit(x))) })/1000 P <- sort(P) round(P) # match Lin & Binns 1988 table 2, column P } # }"},{"path":"/reference/linder.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat in Switzerland — linder.wheat","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"Multi-environment trial wheat Switzerland","code":""},{"path":"/reference/linder.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"","code":"data(\"linder.wheat\")"},{"path":"/reference/linder.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"data frame 252 observations following 4 variables. env environment block block gen genotype yield yield, 10 kg/ha","code":""},{"path":"/reference/linder.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"experiment 9 varieties wheat 7 localities Switzerland   1960, RCB design.","code":""},{"path":"/reference/linder.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"Arthur Linder (1960).   Design Analysis Experiments, notes lectures held   fall semester 1963 Statistics Department, University North   Carolina, page 160.   https://www.stat.ncsu.edu/information/library/mimeo.archive/ISMS_1964_398-.pdf","code":""},{"path":"/reference/linder.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"None.","code":""},{"path":"/reference/linder.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat in Switzerland — linder.wheat","text":"","code":"library(agridat) data(linder.wheat) dat <- linder.wheat  libs(gge) dat <- transform(dat, eb=paste0(env,block)) m1 <- gge(dat, yield~gen*eb, env.group=env) biplot(m1, main=\"linder.wheat\")"},{"path":"/reference/little.splitblock.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-block experiment of sugar beets — little.splitblock","title":"Split-block experiment of sugar beets — little.splitblock","text":"Split-block experiment sugar beets.","code":""},{"path":"/reference/little.splitblock.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Split-block experiment of sugar beets — little.splitblock","text":"","code":"data(\"little.splitblock\")"},{"path":"/reference/little.splitblock.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-block experiment of sugar beets — little.splitblock","text":"data frame 80 observations following 6 variables. row row col column yield sugar beet yield, tons/acre harvest harvest date, weeks planting nitro nitrogen, pounds/acre block block","code":""},{"path":"/reference/little.splitblock.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Split-block experiment of sugar beets — little.splitblock","text":"Four rates nitrogen, laid 4x4 Latin-square experiment. Within column block, sub-plots strips (across 4 rows)   5 different harvest dates. use sub-plots s strips necessitates care determining   error terms ANOVA table. Note, Little yield value 22.3 row 3, column -H3. data   uses 23.3 order match marginal totals given Little.","code":""},{"path":"/reference/little.splitblock.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-block experiment of sugar beets — little.splitblock","text":"Thomas M. Little, F. Jackson Hills. (1978)   Agricultural Experimentation","code":""},{"path":"/reference/little.splitblock.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-block experiment of sugar beets — little.splitblock","text":"None.","code":""},{"path":"/reference/little.splitblock.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-block experiment of sugar beets — little.splitblock","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(little.splitblock) dat <- little.splitblock  # Match marginal totals given by Little. ## sum(dat$yield) ## with(dat, tapply(yield,col,sum)) ## with(dat, tapply(yield,row,sum))  # Layout shown by Little figure 10.2 libs(desplot) desplot(dat, yield ~ col*row,         out1=block, out2=col, col=nitro, cex=1, num=harvest,         main=\"little.splitblock\")   # Convert continuous traits to factors dat <- transform(dat, R=factor(row), C=factor(block),                  H=factor(harvest), N=factor(nitro))  if(0){   libs(lattice)   xyplot(yield ~ nitro|H,dat)   xyplot(yield ~ harvest|N,dat) }  # Anova table matches Little, table 10.3 m1 <- aov(yield ~ R + C + N + H + N:H +             Error(R:C:N + C:H + C:N:H), data=dat) summary(m1)  } # }"},{"path":"/reference/loesell.bean.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of white pea beans — loesell.bean.uniformity","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"Uniformity trial white pea beans","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"","code":"data(\"loesell.bean.uniformity\")"},{"path":"/reference/loesell.bean.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"data frame 1890 observations following 3 variables. row row ordinate col column ordinate yield yield, grams per plot","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"Trial conducted Michigan Agricultural Experiment Station, 1.75   acres. Beans planted rows 28 inches apart 15 Jun   1932. Plants spaced 1 2 inches apart. planting, area 210   ft x 210 feet. area divided 21 columns, 10 foot   wide, containing90 rows. Field length: 90 rows * 28 inches = 210 feet. Field width: 21 series * 10 feet = 210 feet. Author's conclusion: Increasing size plot increasing   length efficient increasing width. Note, missing values dataset result PDF scan   omitting corners table.","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"Loesell, Clarence (1936).   Size plot & number replications necessary varietal trials   white pea beans.   PhD Thesis, Michigan State. Table 3, p. 9-10.   https://d.lib.msu.edu/etd/5271","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"None","code":""},{"path":"/reference/loesell.bean.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of white pea beans — loesell.bean.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   require(agridat)   data(loesell.bean.uniformity)   dat <- loesell.bean.uniformity   require(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=1, tick=TRUE,           main=\"loesell.bean.uniformity\") } # }"},{"path":"/reference/lonnquist.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize, half diallel — lonnquist.maize","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"Half diallel maize","code":""},{"path":"/reference/lonnquist.maize.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"","code":"data(\"lonnquist.maize\")"},{"path":"/reference/lonnquist.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"data frame 78 observations following 3 variables. p1 parent 1 factor p2 parent 2 factor yield yield","code":""},{"path":"/reference/lonnquist.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"Twelve hybrids selfed/crossed half-diallel design.   data means adjusted block effects.   Original experiment 3 reps 2 locations 2 years.","code":""},{"path":"/reference/lonnquist.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"J. H. Lonnquist, C. O. Gardner. (1961)   Heterosis Intervarietal Crosses Maize Implication   Breeding Procedures.   Crop Science, 1, 179-183.  Table 1.","code":""},{"path":"/reference/lonnquist.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"Mohring, Melchinger, Piepho. (2011).   REML-Based Diallel Analysis.   Crop Science, 51, 470-478.   https://doi.org/10.2135/cropsci2010.05.0272 C. O. Gardner S. . Eberhart. 1966.   Analysis Interpretation Variety Cross Diallel Related   Populations. Biometrics, 22, 439-452.   https://doi.org/10.2307/2528181","code":""},{"path":"/reference/lonnquist.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize, half diallel — lonnquist.maize","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(lonnquist.maize)   dat <- lonnquist.maize   dat <- transform(dat,                    p1=factor(p1,                              levels=c(\"C\",\"L\",\"M\",\"H\",\"G\",\"P\",\"B\",\"RM\",\"N\",\"K\",\"R2\",\"K2\")),                    p2=factor(p2,                              levels=c(\"C\",\"L\",\"M\",\"H\",\"G\",\"P\",\"B\",\"RM\",\"N\",\"K\",\"R2\",\"K2\")))      libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   levelplot(yield ~ p1*p2, dat, col.regions=redblue,             main=\"lonnquist.maize - yield of diallel cross\")     # Calculate the F1 means in Lonnquist, table 1   # libs(reshape2)   # mat <- acast(dat, p1~p2)   # mat[upper.tri(mat)] <- t(mat)[upper.tri(mat)] # make symmetric   # diag(mat) <- NA   # round(rowMeans(mat, na.rm=TRUE),1)   ##    C     L     M     H     G     P     B    RM     N     K    R2    K2   ## 94.8  89.2  95.0  96.4  95.3  95.2  97.3  93.7  95.0  94.0  98.9 102.4     # Griffings method   # https://www.statforbiology.com/2021/stat_met_diallel_griffing/   # libs(lmDiallel)   # dat2 <- lonnquist.maize   # dat2 <- subset(dat2,   #                is.element(p1, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")) &   #                is.element(p2, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")))   # dat2 <- droplevels(dat2)   # dmod1 <- lm(yield ~ GCA(p1, p2) + tSCA(p1, p2),   #             data = dat2)   # dmod2 <- lm.diallel(yield ~ p1 + p2,    #                     data = dat2, fct = \"GRIFFING2\")   # anova.diallel(dmod1, MSE=7.1, dfr=60)   ## Response: yield   ##              Df Sum Sq Mean Sq F value    Pr(>F)       ## GCA(p1, p2)   5 234.23  46.846  6.5980 5.923e-05 ***   ## tSCA(p1, p2) 15 238.94  15.929  2.2436   0.01411 *     ## Residuals    60          7.100                             # ----------    if(require(\"asreml\", quietly=TRUE)){     # Mohring 2011 used 6 varieties to calculate GCA & SCA     # Matches Table 3, column 2     d2 <- subset(dat, is.element(p1, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")) &                         is.element(p2, c(\"M\",\"H\",\"G\",\"B\",\"K\",\"K2\")))     d2 <- droplevels(d2)     libs(asreml,lucid)     m2 <- asreml(yield~ 1, data=d2, random = ~ p1 + and(p2))     lucid::vc(m2)     ##     effect component std.error z.ratio      con     ##  p1!p1.var     3.865     3.774     1   Positive     ## R!variance    15.93      5.817     2.7 Positive        # Calculate GCA effects     m3 <- asreml(yield~ p1 + and(p2), data=d2)     coef(m3)$fixed-1.462     # Matches Gardner 1966, Table 5, Griffing method   }    } # }"},{"path":"/reference/lord.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — lord.rice.uniformity","title":"Uniformity trial of rice — lord.rice.uniformity","text":"Uniformity trial rice Ceylon, 1929.","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — lord.rice.uniformity","text":"","code":"data(\"lord.rice.uniformity\")"},{"path":"/reference/lord.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — lord.rice.uniformity","text":"data frame 560 observations following 5 variables. field field row row col column grain grain weight, pounds per plot straw straw weight, pounds per plot","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — lord.rice.uniformity","text":"1929, eight fields 1/5 acre size broadcast seeded rice   Anuradhapura Experiment Station northern dry zone   Ceylon. broadcast, fields marked 10 ft 10 ft   squares. harvest, weights grain straw recorded. Fields 10-14 one side drain, fields 26-28   side. field surrounded bund. Plots next bunds higher   yields. Field width: 5 plots * 10 feet = 50 feet Field length: 14 plots * 10 feet = 140 feet Conclusions: \"appear plots 1/87 acre effective.\"","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — lord.rice.uniformity","text":"Lord, L. (1931).   Uniformity Trial Irrigated Broadcast Rice.   Journal Agricultural Science, 21(1), 178-188.   https://doi.org/10.1017/S0021859600008029","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — lord.rice.uniformity","text":"None","code":""},{"path":"/reference/lord.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — lord.rice.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lord.rice.uniformity) dat <- lord.rice.uniformity  # match table on page 180 ## libs(dplyr) ## dat  ##   field grain straw ##   <chr> <dbl> <dbl> ## 1 10      590   732 ## 2 11      502   600 ## 3 12      315   488 ## 4 13      291   538 ## 5 14      489   670 ## 6 26      441   560 ## 7 27      451   629 ## 8 28      530   718  # There are consistently high yields along all edges of the field # libs(lattice) # bwplot(grain ~ factor(col)|field,dat) # bwplot(grain ~ factor(col)|field,dat)  # Heatmaps libs(desplot) desplot(dat, grain ~ col*row|field,         flip=TRUE, aspect=140/50,         main=\"lord.rice.uniformity\")   # bivariate scatterplots   # xyplot(grain ~ straw|field, dat)  } # }"},{"path":"/reference/love.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — love.cotton.uniformity","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Uniformity trial cotton","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"","code":"data(\"love.cotton.uniformity\")"},{"path":"/reference/love.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"data frame 170 observations following 3 variables. row row col column yield yield, unknown units","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Within 100-foot row, first 20 feet harvested single plot,   rest row harvested 5-foot lengths. Field width: 17 plots. First plot 20 foot segment, remaining   5 foot segments. Field length: 10 plots. distance rows given. Crop location certain.  However, Love & Reisner (2012) mentions   cotton \"blank test\" 200 plots Nanking 1929-1930. Neither document mentions weight unit. Possibly information collected papers Harry   Love Cornell:   https://rmc.library.cornell.edu/EAD/htmldocs/RMA00890.html   Cotton - Plot Technic Study 1930-1932. Box 3, Folder 34   However, turned hand-written manuscript Shiao   .k.. Siao, contained trial data ","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Harry Love (1937).   Application Statistical Methods Agricultural Research.   Commercial Press, Shanghai. Page 411.   https://archive.org/details/.ernet.dli.2015.233346/page/n421","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"Harry Houser Love & John Henry Reisner (2012).   Cornell-Nanking Story.   Internet-First University Press.   https://ecommons.cornell.edu/bitstream/1813/29080/2/Cornell-Nanking_15Jun12_PROOF.pdf","code":""},{"path":"/reference/love.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — love.cotton.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(love.cotton.uniformity)   # omit first column which has 20-foot plots   dat <- subset(love.cotton.uniformity, col > 1)    libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=20/80, # just a guess           main=\"love.cotton.uniformity\")    } # }"},{"path":"/reference/lu.stability.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"Multi-environment trial illustrate stability statistics","code":""},{"path":"/reference/lu.stability.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"","code":"data(\"lu.stability\")"},{"path":"/reference/lu.stability.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"data frame 120 observations following 4 variables. yield yield gen genotype factor, 5 levels env environment factor, 6 levels block block factor, 4 levels","code":""},{"path":"/reference/lu.stability.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"Data 5 maize genotypes 2 years x 3 sites = 6 environments.","code":""},{"path":"/reference/lu.stability.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"H.Y. Lu C. T. Tien. (1993)   Studies nonparametric method phenotypic stability: II. Selection   stability agroeconomic concept.   J. Agric. Assoc. China 164:1-17.","code":""},{"path":"/reference/lu.stability.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"Hsiu Ying Lu. 1995.   PC-SAS Program Estimating Huehn's Nonparametric Stability   Statistics.   Agron J. 87:888-891. Kae-Kang Hwu Li-yu D Liu. (2013)   Stability Analysis Using Multiple Environment Trials Data Linear   Regression. (Chinese)   Crop, Environment & Bioinformatics 10:131-142.","code":""},{"path":"/reference/lu.stability.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize, to illustrate stability statistics — lu.stability","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(lu.stability)   dat <- lu.stability    # GxE means. Match Lu 1995 table 1   libs(reshape2)   datm <- acast(dat, gen~env, fun=mean, value.var='yield')   round(datm, 2)   # Gen/Env means. Match Lu 1995 table 3   apply(datm, 1, mean)   apply(datm, 2, mean)         # Traditional ANOVA. Match Hwu table 2   # F value for gen,env   m1 = aov(yield~env+gen+Error(block:env+env:gen), data=dat)   summary(m1)      # F value for gen:env, block:env   m2 <- aov(yield ~ gen + env + gen:env + block:env, data=dat)    summary(m2)    # Finlay Wilkinson regression coefficients   # First, calculate env mean, merge in   libs(dplyr)   dat2 <- group_by(dat, env)   dat2 <- mutate(dat2, locmn=mean(yield))   m4 <- lm(yield ~ gen -1 + gen:locmn, data=dat2)   coef(m4) # Match Hwu table 4  # Table 6: Shukla's heterogeneity test   dat2$ge = paste0(dat2$gen, dat2$env) # Create a separate ge interaction term     m6 <- lm(yield ~ gen + env + ge + ge:locmn, data=dat2)   m6b <- lm( yield ~ gen + env + ge + locmn, data=dat2)   anova(m6, m6b) # Non-significant difference    # Table 7 - Shukla stability   # First, environment means   emn <- group_by(dat2, env)   emn <- summarize(emn, ymn=mean(yield))   # Regress GxE terms on envt means   getab = (model.tables(m2,\"effects\")$tables)$'gen:env'   getab   for (ll in 1:nrow(getab)){     m7l <- lm(getab[ll, ] ~ emn$ymn)     cat(\"\\n\\n*************** Gen \",ll,\" ***************\\n\")      cat(\"Regression coefficient: \",round(coefficients(m7l)[2],5),\"\\n\")      print(anova(m7l))    } # Match Hwu table 7.  } # } # dontrun"},{"path":"/reference/lucas.switchback.html","id":null,"dir":"Reference","previous_headings":"","what":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Switchback experiment dairy cattle, milk yield 3 treatments","code":""},{"path":"/reference/lucas.switchback.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"","code":"data(\"lucas.switchback\")"},{"path":"/reference/lucas.switchback.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"data frame 36 observations following 5 variables. cow cow factor, 12 levels trt treatment factor, 3 levels period period factor, 3 levels yield yield (FCM = fat corrected milk), pounds/day block block factor","code":""},{"path":"/reference/lucas.switchback.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Lucas says   \"data feeding trials employing present designs yet available, uniformity data used\". Six cows started together block 1, three cows block 2   three cows block 3.","code":""},{"path":"/reference/lucas.switchback.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Lucas, HL. 1956.   Switchback trials two treatments.   Journal Dairy Science, 39, 146-154.   https://doi.org/10.3168/jds.S0022-0302(56)94721-X","code":""},{"path":"/reference/lucas.switchback.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"Sanders, WL Gaynor, PJ. 1987.   Analysis Switchback Data Using Statistical Analysis System.   Journal Dairy Science, 70, 2186-2191.   https://doi.org/10.3168/jds.S0022-0302(87)80273-4","code":""},{"path":"/reference/lucas.switchback.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Switchback experiment on dairy cattle, milk yield for 3 treatments — lucas.switchback","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(lucas.switchback) dat <- lucas.switchback  # Create a numeric period variable dat$per <- as.numeric(substring(dat$period,2))  libs(lattice) xyplot(yield ~ period|block, data=dat, group=cow, type=c('l','r'),        auto.key=list(columns=6),        main=\"lucas.switchback - (actually uniformity data)\")  # Need to use 'terms' to preserve the order of the model terms # Really, cow(block), per:cow(block), period(block) m1 <- aov(terms(yield ~ block + cow:block + per:cow:block +                 period:block + trt, keep.order=TRUE), data=dat) anova(m1) # Match Sanders & Gaynor table 3 ## Analysis of Variance Table ##               Df  Sum Sq Mean Sq F value    Pr(>F) ## block          2   30.93  15.464  55.345 5.132e-05 *** ## block:cow      9 1700.97 188.997 676.426 1.907e-09 *** ## block:cow:per 12  120.47  10.040  35.932 4.137e-05 *** ## block:period   3   14.85   4.950  17.717  0.001194 ** ## trt            2    1.58   0.789   2.825  0.126048 ## Residuals      7    1.96   0.279  coef(m1) # trtT2 and trtT3 match Sanders table 3 trt diffs  } # }"},{"path":"/reference/lyon.potato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of potatoes — lyon.potato.uniformity","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"Uniformity trial potatoes Nebraska Experiment Station, 1909.","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"data frame 204 observations following 3 variables. row row col column, section yield yield, pounds","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"1909, potatoes harvested uniform land Nebraska   Experiment Station. 34 rows, 34 inches apart.   Lyon, page 97 says \"harvested row six sections,   seventy-two feet seven inches long.\"   clear SECTION 72 feet long,   ROW 72 feet long.  Yield potato roughly 0.5 0.8   pounds per square foot, seems plausible entire row   72 feet long (see calculations ). Field width: 6 plots = 72 feet Field length: 34 rows * 34 / 12in/ft = 96 ft","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"Lyon, T.L. (1911).   experiments estimate errors field plat tests.   Proc. Amer. Soc. Agron, 3, 89-114. Table III.   https://doi.org/10.2134/agronj1911.00021962000300010016x","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"None.","code":""},{"path":"/reference/lyon.potato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of potatoes — lyon.potato.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(lyon.potato.uniformity)   dat <- lyon.potato.uniformity    # Yield per square foot, assuming 72 foot rows   sum(dat$yield)/(72*96) # 0.67 # seems about right   # Yield per square foot, assuming 72 foot plots   sum(dat$yield)/(6*72*96) # 0.11      libs(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, flip=TRUE, aspect=96/72, # true aspect           main=\"lyon.potato.uniformity\")    } # }"},{"path":"/reference/lyons.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"Yield winter wheat 12 sites 4 years.","code":""},{"path":"/reference/lyons.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"data frame 48 observations following 3 variables. loc location, 12 levels year year, numeric yield yield (kg)","code":""},{"path":"/reference/lyons.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"Krzanowski uses briefly multi-dimensional scaling.","code":""},{"path":"/reference/lyons.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"R. Lyons (1980). review multidimensional scaling.   Unpublished M.Sc. dissertation, University Reading.","code":""},{"path":"/reference/lyons.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"Krzanowski, W.J. (1988)   Principles multivariate analysis. Oxford University Press.","code":""},{"path":"/reference/lyons.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of winter wheat at 12 sites in 4 years. — lyons.wheat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(lyons.wheat) dat <- lyons.wheat  libs(lattice) xyplot(yield~factor(year), dat, group=loc,   main=\"lyons.wheat\",   auto.key=list(columns=4), type=c('p','l')) } # }"},{"path":"/reference/magistad.pineapple.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of pineapple — magistad.pineapple.uniformity","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"Uniformity trial pineapple Hawaii 1932","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"","code":"data(\"magistad.pineapple.uniformity\")"},{"path":"/reference/magistad.pineapple.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"data frame 137 observations following 6 variables. field field number plat plat number row row col column number number fruits weight weight fruits, grams","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"Field 19. Kunia. Harvested 1932. \"field, harvested 1932, four rows per bed. 300-foot bed divided four equal parts form plats 1, 2, 3, 4.  third [sic, second] bed similarly divided form plats 5 8, inclusive.  manner plats 9 24 formed. way 24 plats 75 feet long 1 bed wide formed.\" Page 635: \"smallest plats 75 6.5 feet\". Field length: 4 plats * 75 feet = 300 feet Field width: 6 plats * 6.5 feet = 39 feet Field 82. Pearl City. \"Eight beds, separated two beds, selected harvested. Beds 8 feet center center. bed divided three plats 76 feet long.\" columns data bed 1, 4, 7, 10, 13, 16, 19, 22 Note: Layout plats rows/columns assumes pattern field 19. Field length: 3 plats * 76 feet = 228 feet Field width: 22 plats * 8 feet = 176 feet. Field 21. Kahuku. \"field 21, Kahuku, experimental plan Latin square type, five beds five plats . beds 7.5 feet center center. plat approximately 60 feet long third bed selected harvested.\" Note: Layout plats rows/columns assumes pattern field 19. Field lenght: 5 plats * 60 feet = 300 feet Field width: 13 plats * 7.5 feet = 97.5 feet Field 1. Kunia. \"experiment another Latin square test eight plats column eight plats row. harvested 1930.  plat consisted two beds 150 feet long. Beds 6 feet center center consisted three rows . entire experimental area occupied 2.85 acres.\" Field length: 8 plats * 150 feet = 1200 feet Field width: 8 plats * 2 beds * 6 feet = 96 feet Total area: 1200*96/43560=2.64 acres","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"O. C. Magistad & C. . Farden (1934).   Experimental Error Field Experiments Pineapples.   Journal American Society Agronomy, 26, 631–643.   https://doi.org/10.2134/agronj1934.00021962002600080001x","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"None","code":""},{"path":"/reference/magistad.pineapple.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of pineapple — magistad.pineapple.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(magistad.pineapple.uniformity)   dat <- magistad.pineapple.uniformity    # match table page 641   ## dat    ##   summarize(number=mean(number),   ##             weight=mean(weight))    ##   field   number   weight   ## 1     1 596.4062 2499.922   ## 2    19 171.1667 2100.250   ## 3    21 171.1600 2056.800   ## 4    82 220.7500 1264.500      libs(desplot)   desplot(dat, weight ~ col*row,           subset=field==19,           aspect=300/39,           main=\"magistad.pineapple.uniformity - field 19\")   desplot(dat, weight ~ col*row,           subset=field==82,           aspect=228/176,           main=\"magistad.pineapple.uniformity - field 82\")             desplot(dat, weight ~ col*row,           subset=field==21,           aspect=300/97.5,           main=\"magistad.pineapple.uniformity - field 21\")   desplot(dat, weight ~ col*row,           subset=field==1,           aspect=1200/96,           main=\"magistad.pineapple.uniformity - field 1\")              } # }"},{"path":"/reference/masood.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — masood.rice.uniformity","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Uniformity trial rice Lahore, Punjab, circa 2011.","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — masood.rice.uniformity","text":"","code":"data(\"masood.rice.uniformity\")"},{"path":"/reference/masood.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — masood.rice.uniformity","text":"data frame 288 observations following 3 variables. row row col column yield yield, kg/m^2","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Data collected Rice Research Institute paddy yield trial.   single variety rice harvested area 12m x 24 m.   Yield kilograms measured square meter.   Masood et al report low degree similarity neighboring plots. Note, Smith index calculations match results   Pakistan Journal Agricultural Research, match   results American-Eurasian Journal, seems   paper seems refer data.  results may simply   differ scaling factor. yield values Masood labeled \"gm^2\" (gram per sq meter),   extremely low. Probably \"kgm^2\". Field length: 24 plots x 1m = 24m. Field width: 12 plots x 1m = 12m. Used permission Asif Masood.","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Masood, M Asif Raza, Irum. 2012.   Estimation optimum field plot size shape paddy yield trial.   Pakistan J. Agric. Res., Vol. 25 . 4, 2012","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — masood.rice.uniformity","text":"Masood, M Asif Raza, Irum. 2012.   Estimation optimum field plot size shape paddy yield trial.   American-Eurasian Journal Scientific Research, 7, 264-269.   Table 1.   https://doi.org/10.5829/idosi.aejsr.2012.7.6.1926","code":""},{"path":"/reference/masood.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — masood.rice.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(masood.rice.uniformity)   dat <- masood.rice.uniformity      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, tick=TRUE, aspect=24/12, # true aspect           main=\"masood.rice.uniformity - yield heatmap\")    libs(agricolae)   libs(reshape2)   dmat <- acast(dat, row~col, value.var='yield')   index.smith(dmat,               main=\"masood.rice.uniformity\",               col=\"red\") # CVs match Table 3    } # }"},{"path":"/reference/mcclelland.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn — mcclelland.corn.uniformity","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"Uniformity trial corn Arkansas Experiment Station, 1925.","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"","code":"data(\"mcclelland.corn.uniformity\")"},{"path":"/reference/mcclelland.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"data frame 438 observations following 3 variables. row row col column yield yield","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"uniformity trial corn 1925 Arkansas Experimental   Station.   Unit measure given. Field width = 66ft * 2 = 132 feet. Field length = 219 rows * 44 inches / 12 inches/ft = 803 ft. Note: source document, table 2, first 'west' column   second--last row (page 822), value 1.40 assumed   typographical error changed 14.0 data. source document give unit measure plot   yields. yield bu/ac, value 12 bu/ac   low. hand, value 12 pounds per plot * 180 plots per   acre / 56 pounds per bushel = 39 bu/ac reasonable yield   corn 1925, whereas 12 kg per plot unlikely high.   Also, 1925, pound likely kilogram.","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"McClelland, Chalmer Kirk (1926).   determinations plat variability.   Agronomy Journal, 18, 819-823.   https://doi.org/10.2134/agronj1926.00021962001800090009x","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"None","code":""},{"path":"/reference/mcclelland.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn — mcclelland.corn.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(mcclelland.corn.uniformity)   dat <- mcclelland.corn.uniformity      # McClelland table 3, first row, gives 11.2   # Probable error = 0.67449 * sd(). Relative to mean.   # 0.67449 * sd(dat$yield)/mean(dat$yield) # 11.2      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE,           aspect=(219*44/12)/132, # true aspect, 219 rows * 44 inches x 132 feet           main=\"mcclelland.corn.uniformity\")    } # }"},{"path":"/reference/mcconway.turnip.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of turnips — mcconway.turnip","title":"RCB experiment of turnips — mcconway.turnip","text":"RCB experiment turnips, 2 treatments planting date density","code":""},{"path":"/reference/mcconway.turnip.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of turnips — mcconway.turnip","text":"data frame 64 observations following 6 variables. gen genotype date planting date, levels 21Aug1990 28Aug1990 density planting density, 1, 2, 4, 8 kg/ha block block, 4 levels yield yield","code":""},{"path":"/reference/mcconway.turnip.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of turnips — mcconway.turnip","text":"randomized block experiment 16 treatments   allocated random four blocks.  16 treatments   combinations two varieties, two planting dates,   four densities. Lee et al (2008) proposed analysis using mixed models changing   treatment variances. Piepho (2009) proposed ordinary ANOVA using transformed data. Used permission Kevin McConway.","code":""},{"path":"/reference/mcconway.turnip.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of turnips — mcconway.turnip","text":"K. J. McConway, M. C. Jones, P. C. Taylor.   Statistical Modelling Using Genstat.","code":""},{"path":"/reference/mcconway.turnip.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of turnips — mcconway.turnip","text":"Michael Berthold, D. J. Hand.   Intelligent data analysis: introduction, 1998.   Pages 75–82. Lee, C.J. O Donnell, M. O Neill, M. (2008).   Statistical analysis field trials changing treatment   variance.   Agronomy Journal, 100, 484–489. Piepho, H.P. (2009),   Data transformation statistical analysis field trials   changing treatment variance.   Agronomy Journal, 101, 865–869.   https://doi.org/10.2134/agronj2008.0226x","code":""},{"path":"/reference/mcconway.turnip.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of turnips — mcconway.turnip","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(mcconway.turnip) dat <- mcconway.turnip dat$densf <- factor(dat$density)  # Table 2 of Lee et al. m0 <- aov( yield ~ gen * densf * date + block, dat ) summary(m0) ##                Df Sum Sq Mean Sq F value   Pr(>F) ## gen             1   84.0   83.95   8.753  0.00491 ** ## densf           3  470.4  156.79  16.347 2.51e-07 *** ## date            1  233.7  233.71  24.367 1.14e-05 *** ## block           3  163.7   54.58   5.690  0.00216 ** ## gen:densf       3    8.6    2.88   0.301  0.82485 ## gen:date        1   36.5   36.45   3.800  0.05749 . ## densf:date      3  154.8   51.60   5.380  0.00299 ** ## gen:densf:date  3   18.0    6.00   0.626  0.60224 ## Residuals      45  431.6    9.59 ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1  # Boxplots suggest heteroskedasticity for date, density libs(\"HH\") interaction2wt(yield ~ gen + date + densf +block, dat,                x.between=0, y.between=0,                main=\"mcconway.turnip - yield\")   libs(nlme) # Random block model m1 <- lme(yield ~ gen * date * densf, random= ~1|block, data=dat) summary(m1) anova(m1)  # Multiplicative variance model over densities and dates m2 <- update(m1,              weights=varComb(varIdent(form=~1|densf),                varIdent(form=~1|date))) summary(m2) anova(m2)  # Unstructured variance model over densities and dates m3 <- update(m1, weights=varIdent(form=~1|densf*date)) summary(m3) anova(m3)  # Table 3 of Piepho, using transformation m4 <- aov( yield^.235 ~ gen * date * densf + block, dat ) summary(m4)  } # }"},{"path":"/reference/mckinstry.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"Uniformity trial cotton South Rhodesia","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"","code":"data(\"mckinstry.cotton.uniformity\")"},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"data frame 480 observations following 3 variables. row row ordinate col column ordinate yield yield per plot, ounces","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"uniformity trial cotton experiment Gatooma, South Rhodesia. Conducted Empire Cotton Growing Corporation. Planted Nov 1934. Harvested Jun 1935. Field length: 20 rows x 25 feet. Field width: 24 columns x 3.5 feet. Crop History: season good peak flowering - good growth, heavy flowering - 5 weeks drought critical period crop, aggravated exceptionally heavy aphis attack heavy boll-worm attack accounts. Lay-: harvest, block 24 rows x 500 ft, row marked 20 lengths 25 ft , giving 480 small plots. use made data advisable ignore row 1 row 20, bordering roads. data made available special help staff Rothamsted Research Library.","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"None","code":""},{"path":"/reference/mckinstry.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton in South Rhodesia — mckinstry.cotton.uniformity","text":"","code":"library(agridat) data(mckinstry.cotton.uniformity) dat <- mckinstry.cotton.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, tick=TRUE, aspect=(20*25)/(24*3.5),         main=\"mckinstry.cotton.uniformity\")"},{"path":"/reference/mcleod.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"Yield yield components barley different seeding rates.","code":""},{"path":"/reference/mcleod.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"data frame 40 observations following 10 variables. year year, numeric site site factor rate rate, numeric plants plants per sq meter tillers tillers per plant heads heads per plant surviving percent surviving tillers grains grains per head weight weight 1000 grains yield yield tons/hectare","code":""},{"path":"/reference/mcleod.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"Trials conducted 5 sites, 3 years South Canterbury.   (sites every year).   Values average 6 blocks.  1974   severe drought.  years favorable growing conditions.","code":""},{"path":"/reference/mcleod.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"C. C. McLeod (1982).   Effects rates seeding barley sown grain.   New Zealand Journal Experimental Agriculture, 10, 133-136.   https://doi.org/10.1080/03015521.1982.10427857.","code":""},{"path":"/reference/mcleod.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"Maindonald (1992).","code":""},{"path":"/reference/mcleod.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley in South Canterbury with yield and yield components — mcleod.barley","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(mcleod.barley) dat <- mcleod.barley  # Table 3 of McLeod.  Across-environment means by planting rate d1 <- aggregate(cbind(plants, tillers, heads, surviving, grains,                       weight, yield) ~ rate, dat, FUN=mean) # Calculate income based on seed cost of $280/ton, grain $140/ton. d1 <- transform(d1, income=140*yield-280*rate/1000) signif(d1,3) ##  rate plants tillers heads surviving grains weight yield ##    50 112.12    5.22  4.36     83.95  21.25  46.11  3.97 ##    75 162.75    4.04  3.26     80.89  19.95  45.10  4.26 ##   100 202.62    3.69  2.73     74.29  19.16  44.66  4.38 ##   125 239.00    3.28  2.33     71.86  18.45  43.45  4.41 ##   150 293.62    2.90  2.00     69.54  17.94  42.77  4.47  # Even though tillers/plant, heads/plant, surviving tillers, # grains/head, weight/1000 grains are all decreasing as planting # rate increases, the total yield is still increasing. # But, income peaks around seed rate of 100.  libs(lattice) xyplot(yield +income +surviving +grains +weight +plants +tillers +heads ~ rate,        data=d1, outer=TRUE, type=c('p','l'),        scales=list(y=list(relation=\"free\")),        xlab=\"Nitrogen rate\", ylab=\"Trait value\",        main=\"mcleod.barley - nitrogen response curves\"  )  } # }"},{"path":"/reference/mead.cauliflower.html","id":null,"dir":"Reference","previous_headings":"","what":"Leaves for cauliflower plants at different times — mead.cauliflower","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Leaves cauliflower plants different times two years.","code":""},{"path":"/reference/mead.cauliflower.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"data frame 14 observations following 4 variables. year year factor degdays degree days 32F leaves number leaves","code":""},{"path":"/reference/mead.cauliflower.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Numbers leaves 10 cauliflower plants two years,   temperature degree-days 32F, divided 100. year 1956-57 1957-58. data range shown, number leaves increasing   linearly.  Extrapolating backwards shows linear model   inappropriate, glm used.","code":""},{"path":"/reference/mead.cauliflower.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall. Page 251.","code":""},{"path":"/reference/mead.cauliflower.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"Mick O'Neill. Regression & Generalized Linear (Mixed) Models.   Statistical Advisory & Training Service Pty Ltd.","code":""},{"path":"/reference/mead.cauliflower.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Leaves for cauliflower plants at different times — mead.cauliflower","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(mead.cauliflower) dat <- mead.cauliflower  dat <- transform(dat, year=factor(year))  m1 <- glm(leaves ~ degdays + year, data=dat, family=poisson) coef(m1) ## (Intercept)     degdays    year1957 ##  3.49492453  0.08512651  0.21688760  dat$pred <- predict(m1, type=\"response\") libs(lattice) libs(latticeExtra) xyplot(leaves~degdays, data=dat, groups=year, type=c('p'),        auto.key=list(columns=2),        main=\"mead.cauliflower - observed (symbol) & fitted (line)\",        xlab=\"degree days\", ylab=\"Number of leaves\", ) +   xyplot(pred~degdays, data=dat, groups=year, type=c('l'), col=\"black\")  } # }"},{"path":"/reference/mead.cowpea.maize.html","id":null,"dir":"Reference","previous_headings":"","what":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"Intercropping experiment maize/cowpea, multiple nitrogen treatments.","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"data frame 72 observations following 6 variables. block block, 3 levels nitro nitrogen, 4 levels cowpea cowpea variety, 2 levels maize maize variety, 3 levels cyield cowpea yield, kg/ha myield maize yield, kg/ha","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"intercropping experiment conducted Nigeria.  four nitrogen   treatments 0, 40, 80, 120 kg/ha.","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"Roger Mead. 1990. Review Methodology Analysis Intercropping   Experiments.   Training Working Document . 6.  CIMMYT.   https://repository.cimmyt.org/xmlui/handle/10883/868","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall.  Page 390.","code":""},{"path":"/reference/mead.cowpea.maize.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Intercropping experiment of maize/cowpea — mead.cowpea.maize","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(mead.cowpea.maize) dat <- mead.cowpea.maize  # Cowpea and maize yields are clearly in competition libs(\"latticeExtra\") useOuterStrips(xyplot(myield ~ cyield|maize*cowpea, dat, group=nitro,                       main=\"mead.cowpea.maize - intercropping\",                       xlab=\"cowpea yield\",                       ylab=\"maize yield\", auto.key=list(columns=4)))   # Mead Table 2 Cowpea yield anova...strongly affected by maize variety. anova(aov(cyield ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat)) # Cowpea mean yields for nitro*cowpea aggregate(cyield ~ nitro+cowpea, dat, FUN=mean) # Cowpea mean yields for each maize variety aggregate(cyield ~ maize, dat, FUN=mean)  # Bivariate analysis aov.c <- anova(aov(cyield/1000 ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat))  aov.m <- anova(aov(myield/1000 ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat))  aov.cm <- anova(aov(cyield/1000 + myield/1000 ~ block + maize + cowpea + nitro +           maize:cowpea + maize:nitro + cowpea:nitro +           maize:cowpea:nitro, dat))  biv <- cbind(aov.m[,1:2], aov.c[,2], aov.cm[,2]) names(biv) <- c('df','maize ss','cowpea ss','ss for sum') biv$'sum of prod' <- (biv[,4] - biv[,2] - biv[,3] ) /2 biv$cor <- biv[,5]/(sqrt(biv[,2] * biv[,3])) signif(biv,2) ##                    df maize ss cowpea ss ss for sum sum of prod    cor ## block               2    0.290    0.0730      0.250      -0.058 -0.400 ## maize               2   18.000    0.4100     13.000      -2.600 -0.980 ## cowpea              1    0.027    0.0060      0.058       0.013  1.000 ## nitro               3   29.000    0.1100     25.000      -1.800 -0.980 ## maize:cowpea        2    1.100    0.0099      0.920      -0.099 -0.950 ## maize:nitro         6    1.300    0.0680      0.920      -0.200 -0.680 ## cowpea:nitro        3    0.240    0.1700      0.150      -0.130 -0.640 ## maize:cowpea:nitro  6    1.300    0.1400      1.300      -0.033 -0.079 ## Residuals          46   16.000    0.6000     14.000      -1.400 -0.460  } # }"},{"path":"/reference/mead.germination.html","id":null,"dir":"Reference","previous_headings":"","what":"Seed germination with different temperatures/concentrations — mead.germination","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"Seed germination different temperatures/concentrations","code":""},{"path":"/reference/mead.germination.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"data frame 64 observations following 5 variables. temp temperature regimen rep replication factor (blocking) conc chemical concentration germ number seeds germinating seeds number seeds tested = 50","code":""},{"path":"/reference/mead.germination.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"rep factor blocking factor. Used permission Roger Mead, Robert Curnow, Anne Hasted.","code":""},{"path":"/reference/mead.germination.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall.  Page 350-351.","code":""},{"path":"/reference/mead.germination.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"Schabenberger, O. Pierce, F.J., 2002.   Contemporary statistical models plant soil sciences.   CRC.","code":""},{"path":"/reference/mead.germination.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Seed germination with different temperatures/concentrations — mead.germination","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(mead.germination) dat <- mead.germination dat <- transform(dat, concf=factor(conc)) libs(lattice) xyplot(germ~log(conc+.01)|temp, dat, layout=c(4,1),        main=\"mead.germination\", ylab=\"number of seeds germinating\")  m1 <- glm(cbind(germ, seeds-germ) ~ 1, dat, family=binomial) m2 <- glm(cbind(germ, seeds-germ) ~ temp, dat, family=binomial) m3 <- glm(cbind(germ, seeds-germ) ~ concf, dat, family=binomial) m4 <- glm(cbind(germ, seeds-germ) ~ temp + concf, dat, family=binomial) m5 <- glm(cbind(germ, seeds-germ) ~ temp * concf, dat, family=binomial) anova(m1,m2,m3,m4,m5) ##   Resid. Df Resid. Dev Df Deviance ## 1        63    1193.80 ## 2        60     430.11  3   763.69 ## 3        60     980.10  0  -549.98 ## 4        57     148.11  3   831.99 ## 5        48      55.64  9    92.46  # Show logit and fitted values.  T2 has highest germination subset(cbind(dat, predict(m5), fitted(m5)), rep==\"R1\")  } # }"},{"path":"/reference/mead.lamb.html","id":null,"dir":"Reference","previous_headings":"","what":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"Number lambs born 3 breeds 3 farms","code":""},{"path":"/reference/mead.lamb.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"","code":"data(\"mead.lamb\")"},{"path":"/reference/mead.lamb.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"data frame 36 observations following 4 variables. farm farm: F1, F2, F3 breed breed: B1, B2, B3 lambclass lambing class: L0, L1, L2, L3 y count ewes class","code":""},{"path":"/reference/mead.lamb.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"data 'y' counts ewes different lambing classes.   classes number live lambs per birth 0, 1, 2, 3+ lambs.","code":""},{"path":"/reference/mead.lamb.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"Roger Mead, Robert N Curnow, Anne M Hasted. 2002.   Statistical Methods Agriculture Experimental Biology, 3rd ed.   Chapman Hall. Page 359.","code":""},{"path":"/reference/mead.lamb.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"None","code":""},{"path":"/reference/mead.lamb.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Number of lambs born to 3 breeds on 3 farms — mead.lamb","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(mead.lamb) dat <- mead.lamb  # farm 1 has more ewes in lambclass 3 d2 <- xtabs(y ~ farm+breed+lambclass, data=dat) mosaicplot(d2, color=c(\"lemonchiffon1\",\"moccasin\",\"lightsalmon1\",\"indianred\"),            xlab=\"farm/lambclass\", ylab=\"breed\", main=\"mead.lamb\")  names(dat) <- c('F','B','L','y') # for compactness # Match totals in Mead example 14.6 libs(dplyr) dat <- group_by(dat, F,B) summarize(dat, y=sum(y)) ##          F      B     y ##   <fctr> <fctr> <int> ## 1     F1      A   150 ## 2     F1      B    46 ## 3     F1      C    78 ## 4     F2      A    72 ## 5     F2      B    79 ## 6     F2      C    28 ## 7     F3      A   224 ## 8     F3      B   129 ## 9     F3      C    34   # Models m1 <- glm(y ~ F + B + F:B, data=dat,           family=poisson(link=log)) m2 <- update(m1, y ~ F + B + F:B + L) m3 <- update(m1, y ~ F + B + F:B + L + B:L) m4 <- update(m1, y ~ F + B + F:B + L + F:L) m5 <- update(m1, y ~ F + B + F:B + L + B:L + F:L)  AIC(m1, m2, m3, m4, m5) # Model 4 has best AIC ##    df      AIC ## m1  9 852.9800 ## m2 12 306.5457 ## m3 18 303.5781 ## m4 18 206.1520 ## m5 24 213.8873  # Change contrasts for Miroslav m4 <- update(m4,              contrasts=list(F=contr.sum,B=contr.sum,L=contr.sum)) summary(m4)  # Match deviance table from Mead libs(broom) all <- do.call(rbind, lapply(list(m1, m2, m3, m4, m5), broom::glance)) all$model <- unlist(lapply(list(m1, m2, m3, m4, m5),                                function(x) as.character(formula(x)[3]))) all[,c('model','deviance','df.residual')] ##                         model  deviance df.residual ## 1                 F + B + F:B 683.67257          27 ## 2             F + B + L + F:B 131.23828          24 ## 3       F + B + L + F:B + B:L 116.27069          18 ## 4       F + B + L + F:B + F:L  18.84460          18 ## 5 F + B + L + F:B + B:L + F:L  14.57987          12   if(0){   # Using MASS::loglm   libs(MASS)   # Note: without 'fitted=TRUE', devtools::run_examples has an error   m4b <- MASS::loglm(y ~ F + B + F:B + L + F:L, data = dat, fitted=TRUE)   # Table of farm * class interactions. Match Mead p. 360   round(coef(m4b)$F.L,2)   fitted(m4b)   resid(m4b)   # libs(vcd)   # mosaic(m4b, shade=TRUE,   # formula = ~ F + B + F:B + L + F:L,   # residual_type=\"rstandard\", keep_aspect=FALSE) }  } # }"},{"path":"/reference/mead.strawberry.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of strawberry — mead.strawberry","title":"RCB experiment of strawberry — mead.strawberry","text":"RCB experiment strawberry","code":""},{"path":"/reference/mead.strawberry.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of strawberry — mead.strawberry","text":"data frame 32 observations following 5 variables. row row col column block block, 4 levels gen genotype, 8 levels yield yield, pounds","code":""},{"path":"/reference/mead.strawberry.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of strawberry — mead.strawberry","text":"hedge along right side (column 8) caused shading lower   yields. R. Mead said (discussion Besag & Higdon paper),   \"blocks defined (given experimenter)   entire horizontal rows...design trial actually   (unrecognized also) checker-board eight half-blocks   two groups split-plot varieties\". two sub-groups genotypes G, V, R1, F Re, M, E, P.","code":""},{"path":"/reference/mead.strawberry.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of strawberry — mead.strawberry","text":"Unknown, prior 1968 according Besag. Probably via R. Mead.","code":""},{"path":"/reference/mead.strawberry.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of strawberry — mead.strawberry","text":"R. Mead, 1990, Design Experiments. Julian Besag D Higdon, 1999.   Bayesian Analysis Agricultural Field Experiments,   Journal Royal Statistical Society: Series B (Statistical     Methodology),61, 691–746. Table 4.","code":""},{"path":"/reference/mead.strawberry.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of strawberry — mead.strawberry","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(mead.strawberry) dat <- mead.strawberry dat$sub <- ifelse(is.element(dat$gen, c('G', 'V', 'R1', 'F')),               \"S1\",\"S2\")  libs(desplot) desplot(dat, yield~col*row,         text=gen, cex=1, out1=block, out2=sub, # unknown aspect         main=\"mead.strawberry\")  } # }"},{"path":"/reference/mead.turnip.html","id":null,"dir":"Reference","previous_headings":"","what":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"Density/spacing experiment turnips 3 blocks.","code":""},{"path":"/reference/mead.turnip.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"","code":"data(\"mead.turnip\")"},{"path":"/reference/mead.turnip.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"data frame 60 observations following 4 variables. yield log yield (pounds/plot) block block spacing row spacing, inches density density seeds, pounds/acre","code":""},{"path":"/reference/mead.turnip.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"experiment turnips, 3 blocks, 20 treatments factorial   arrangement 5 seeding rates (density) 4 widths (spacing).","code":""},{"path":"/reference/mead.turnip.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"Roger Mead. (1988).   Design Experiments: Statistical Principles Practical Applications.   Example 12.3. Page 323.","code":""},{"path":"/reference/mead.turnip.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"H. P. Piepho, R. N. Edmondson. (2018).   tutorial statistical analysis factorial experiments   qualitative quantitative treatment factor levels.   Jour Agronomy Crop Science, 8, 1-27.   https://doi.org/10.1111/jac.12267","code":""},{"path":"/reference/mead.turnip.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Density/spacing experiment for turnips in 3 blocks. — mead.turnip","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(mead.turnip) dat <- mead.turnip  dat$ratef <- factor(dat$density) dat$widthf <- factor(dat$spacing)  m1 <- aov(yield ~ block + ratef + widthf + ratef:widthf, data=dat) anova(m1) # table 12.10 in Mead  # Similar to Piepho fig 10 libs(lattice) xyplot(yield ~ log(spacing)|ratef, data=dat,        auto.key=list(columns=5),        main=\"mead.turnip - log(yield) for each density\",        group=ratef)  } # }"},{"path":"/reference/mercer.mangold.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of mangolds — mercer.mangold.uniformity","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"Uniformity trial mangolds Rothamsted Experiment Station,   England, 1910.","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"","code":"data(\"mercer.mangold.uniformity\")"},{"path":"/reference/mercer.mangold.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"data frame 200 observations following 4 variables. row row col column roots root yields, pounds leaves leaf yields, pounds","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"Grown 1910. plot 3 drills, drill 2.4 feet wide.   Plots 1/200 acres, 7.2 feet 30.25 feet long   \"length plots runs horizontal lines figures [  Table ], also direction drills across field.\" Field width: 10 plots * 30.25ft = 302.5 feet Field length: 20 plots * 7.25 ft = 145 feet","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"Mercer, WB Hall, AD, 1911. experimental error field trials   Journal Agricultural Science, 4, 107-132. Table 1.   https://doi.org/10.1017/S002185960000160X","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.     https://doi.org/10.1098/rspa.2006.1667 Theodor Roemer (1920).   Der Feldversuch. Page 64, table 5.","code":""},{"path":"/reference/mercer.mangold.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of mangolds — mercer.mangold.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(mercer.mangold.uniformity)   dat <- mercer.mangold.uniformity      libs(desplot)   desplot(dat, leaves~col*row,           aspect=145/302, # true aspect           main=\"mercer.mangold.uniformity - leaves\")    libs(desplot)   desplot(dat, roots~col*row,           aspect=145/302, # true aspect           main=\"mercer.mangold.uniformity - roots\")    libs(lattice)   xyplot(roots~leaves, data=dat)    } # }"},{"path":"/reference/mercer.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — mercer.wheat.uniformity","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"Uniformity trial wheat Rothamsted Experiment Station, England, 1910.","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"data frame 500 observations following 4 variables. row row col column grain grain yield, pounds straw straw yield, pounds","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"wheat crop grown summer 1910 Rothamsted   Experiment Station (Harpenden, Hertfordshire, England).  Great Knott,   seemingly uniform area 1 acre harvested separate plots,   1/500th acre size.  grain straw plot weighed   separately. McCullagh gives information plot size. Field width: 25 plots * 8 ft = 200 ft Field length: 20 plots * 10.82 ft = 216 ft D. G. Rossiter (2014) uses data extensive data analysis   tutorial.","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"Mercer, WB Hall, AD, (1911).   experimental error field trials   Journal Agricultural Science, 4, 107-132. Table 5.   https://doi.org/10.1017/S002185960000160X","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667 Theodor Roemer (1920).   Der Feldversuch. Page 65, table 6. D. G. Rossiter (2014). Tutorial: Using R Environment Statistical Computing   example Mercer & Hall wheat yield dataset. G. . Baker (1941).   Fundamental Distribution Errors Agricultural Field Trials.   National Mathematics Magazine, 16, 7-19.   https://doi.org/10.2307/3028105 'spdep' package includes grain yields   () spatial positions plot centres example dataset   'wheat'. Note, checked '4.03' values data match original   document.","code":""},{"path":"/reference/mercer.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — mercer.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(mercer.wheat.uniformity)   dat <- mercer.wheat.uniformity       libs(desplot)   desplot(dat, grain ~ col*row,           aspect=216/200, # true aspect           main=\"mercer.wheat.uniformity - grain yield\")       libs(lattice)   xyplot(straw ~ grain, data=dat, type=c('p','r'),          main=\"mercer.wheat.uniformity - regression\")       libs(hexbin)   hexbinplot(straw ~ grain, data=dat)     libs(sp, gstat)   plot.wid <- 2.5   plot.len <- 3.2   nr <- length(unique(dat$row))   nc <- length(unique(dat$col))      xy <- expand.grid(x = seq(plot.wid/2, by=plot.wid, length=nc),                     y = seq(plot.len/2, by=plot.len, length=nr))   dat.sp <- dat   coordinates(dat.sp) <- xy      # heatmap   spplot(dat.sp, zcol = \"grain\", cuts=8,          cex = 1.6,          col.regions =  bpy.colors(8),          main = \"Grain yield\", key.space = \"right\")    # variogram   # Need gstat::variogram to get the right method   vg <- gstat::variogram(grain ~ 1, dat.sp, cutoff = plot.wid * 10, width = plot.wid)   plot(vg, plot.numbers = TRUE,        main=\"mercer.wheat.uniformity - variogram\")  } # }"},{"path":"/reference/miguez.biomass.html","id":null,"dir":"Reference","previous_headings":"","what":"Biomass of 3 crops in Greece — miguez.biomass","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Biomass 3 crops Greece","code":""},{"path":"/reference/miguez.biomass.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"","code":"data(\"miguez.biomass\")"},{"path":"/reference/miguez.biomass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"data frame 212 observations following 5 variables. doy day year block block, 1-4 input management input, Lo/Hi crop crop type yield yield tons/ha","code":""},{"path":"/reference/miguez.biomass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Experiment conducted Greece 2009. Yield values   destructive Measurements -ground biomass fiber sorghum,   maize, sweet sorghum. Hi management refers weekly irrigation high nitrogen applications.   Lo management refers bi-weekly irrigation low nitrogen. experiment 4 blocks. Crops planted DOY 141 0 yield.","code":""},{"path":"/reference/miguez.biomass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Fernando E. Miguez. R package nlraa.   https://github.com/femiguez/nlraa","code":""},{"path":"/reference/miguez.biomass.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"Sotirios V. Archontoulis Fernando E. Miguez (2013).   Nonlinear Regression Models Applications Agricultural Research.   Agron. Journal, 105:1-13.   https://doi.org/10.2134/agronj2012.0506 Hamze Dokoohaki.   https://www.rpubs.com/Para2x/100378   https://rstudio-pubs-static.s3.amazonaws.com/100440_26eb9108524c4cc99071b0db8e648e7d.html","code":""},{"path":"/reference/miguez.biomass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Biomass of 3 crops in Greece — miguez.biomass","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(miguez.biomass)   dat <- miguez.biomass   dat <- subset(dat, doy > 141)    libs(lattice)   xyplot(yield ~ doy | crop*input,  data = dat,          main=\"miguez.biomass\",          groups = crop,          type=c('p','smooth'),          auto.key=TRUE)     # ----------   # Archontoulis et al fit some nonlinear models.   # Here is a simple example which does NOT account for crop/input   # Slow, so dont run   if(0){     dat2 <- transform(dat, eu = paste(block, input, crop))     dat2 <- groupedData(yield ~ doy | eu, data = dat2)     fit.lis <- nlsList(yield ~ SSfpl(doy, A, B, xmid, scal),                        data = dat2,                        control=nls.control(maxiter=100))     print(plot(intervals(fit.lis)))          libs(nlme)     # use all data to get initial values     inits <- getInitial(yield ~ SSfpl(doy, A, B, xmid, scal), data = dat2)     inits     xvals <- 150:325     y1 <- with(as.list(inits), SSfpl(xvals, A, B, xmid, scal))     plot(yield ~ doy, dat2)     lines(xvals,y1)          # must have groupedData object to use augPred     dat2 <- groupedData(yield ~ doy|eu, data=dat2)     plot(dat2)          # without 'random', all effects are included in 'random'     m1 <- nlme(yield ~ SSfpl(doy, A, B, xmid,scale),                data= dat2,                fixed= A + B + xmid + scale ~ 1,                # random = B ~ 1|eu, # to make only B random                random = A + B + xmid + scale ~ 1|eu,                start=inits)     fixef(m1)     summary(m1)     plot(augPred(m1, level=0:1),          main=\"miguez.biomass - observed/predicted data\") # only works with groupedData object   }    } # }"},{"path":"/reference/minnesota.barley.weather.html","id":null,"dir":"Reference","previous_headings":"","what":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"monthly weather summaries 6 sites barley yield   trials conducted.","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"data frame 719 observations following 8 variables. site site, 6 levels year year, 1927-1936 mo month, 1-12, numeric cdd monthly cooling degree days, Fahrenheit hdd monthly heating degree days, Fahrenheit precip monthly precipitation, inches min monthly average daily minimum temp, Fahrenheit max monthly average daily maximum temp, Fahrenheit","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"weather data extracted National Climate Data   Center, following weather stations chosen, based   availability weather data given time frame (1927-1936)   proximity town (site) barley data.  'cdd' cooling degree days, number degree days   temperature _above_ 65 Fahrenheit. 'hdd' heating degree days, _below_ 65 Fahrenheit. data available Duluth Dec, 1931.","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"National Climate Data Center, https://www.ncdc.noaa.gov/.","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"Kevin Wright. 2013.  Revisiting Immer's Barley Data.   American Statistitician, 67, 129-133.   https://doi.org/10.1080/00031305.2013.801783","code":""},{"path":"/reference/minnesota.barley.weather.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Monthly weather at 6 sites in Minnesota 1927-1936. — minnesota.barley.weather","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(minnesota.barley.yield) dat <- minnesota.barley.yield data( minnesota.barley.weather) datw <- minnesota.barley.weather    # Weather trends over time   libs(latticeExtra)   useOuterStrips(xyplot(cdd~mo|year*site, datw, groups=year,                         main=\"minnesota.barley\",                         xlab=\"month\", ylab=\"Cooling degree days\",                         subset=(mo > 3 & mo < 10),                         scales=list(alternating=FALSE),                         type='l', auto.key=list(columns=5)))   # Total cooling/heating/precip in Apr-Aug for each site/yr ww <- subset(datw, mo>=4 & mo<=8) ww <- aggregate(cbind(cdd,hdd,precip)~site+year, data=ww, sum)  # Average yield per each site/env yy <- aggregate(yield~site+year, dat, mean)  minn <- merge(ww, yy)   # Higher yields generally associated with cooler temps, more precip libs(reshape2) me <- melt(minn, id.var=c('site','year')) mey <- subset(me, variable==\"yield\") mey <- mey[,c('site','year','value')] names(mey) <- c('site','year','y') mec <- subset(me, variable!=\"yield\") names(mec) <- c('site','year','covar','x') mecy <- merge(mec, mey) mecy$yr <- factor(mecy$year) foo <- xyplot(y~x|covar*site, data=mecy, groups=yr, cex=1, ylim=c(5,65),               par.settings=list(superpose.symbol=list(pch=substring(levels(mecy$yr),4))),               xlab=\"\", ylab=\"yield\", main=\"minnesota.barley\",               panel=function(x,y,...) {                 panel.lmline(x,y,..., col=\"gray\")                 panel.superpose(x,y,...)               },               scales=list(x=list(relation=\"free\")))   libs(latticeExtra)   foo <- useOuterStrips(foo, strip.left = strip.custom(par.strip.text=list(cex=.7)))   combineLimits(foo, margin.x=2L) # Use a common x axis for all rows  } # }"},{"path":"/reference/minnesota.barley.yield.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"data come barley breeding experiments conducted   Minnesota years 1893-1942.   early years, experiments conducted StPaul.   late 1920s, experiments expanded 6 sites across   state.","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"data frame 647 observations following 4 variables. site site factor, 6 levels gen_name genotype name gen genotype (CI cereal introduction ID) year year yield yield bu/ac","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"lattice package contains smaller version data   years 1931 1932. expanded version barley data often   used illustrate dot plots. following comments reference mentioned source   documents. —– Notes Immer (1934) —– University Farm location Saint Paul. source provides yield data three blocks   location 1931 1932.  following registration numbers   names given:  —– Notes Harlan et al (1925) —– data early tests accurate stations, may   problems stations. (p. 14). Identification many varieties inadequate...chance   incorrectly identified small...Officials StPaul   station expressed desire conclusions drawn   yields limitations earlier experiments taken   full consideration. (p. 72) Chevalier Hanna varieties well adapted StPaul   (p. 73). —– Notes Harlan et al (1929) —– —– Notes Harlan et al (1935) —– 1931 yields match average values Immer (1934). Minnesota 474 475 cultivars 'Svanhals x Lion' crosses. yields reported Crookston 1928 crop failure. (Page 20) Also, report North Dakota says   \"zero yields Williston, ND 1931 caused drought\". (Page 31) —– Notes Wiebe et al (1935) —– —– Notes Wiebe et al (1940) —– 1932 data generally match average values Immer (1934)   following notes. data Glabron St Paul 1932 missing, given 36.8   Immer (1934).  value treated missing R dataset. data Svansota Morris 1932 missing, given 35.0   Immer (1934).  value treated missing R dataset. yield 'Wisconsin 38' St Paul 1932 shown 3.80,   38 Immer (1934).  latter value used R dataset. yields No475 1932 reported Wiebe (1940),   reported Immer (1934). yields reported Morris 1933 1934, crop   failure owing drought. —– Notes Hayes (1942) —– source gives block-level yield data 5 cultivars 4   sites 1932 1935.  Cultivar 'Barbless' 'Wisconsin   No38'.","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"Harry V. Harlan Mary L. Martini Merrit N. Pope (1925).   Tests barley varieties America.   United States Department Agriculture, Department Bulletin 1334.   https://archive.org/details/testsofbarleyvar1334harl H. V. Harlan L. H. Newman Mary L. Martini (1929).   Yields barley United States Canada 1922-1926.   United States Department Agriculture, Technical Bulletin 96.   https://handle.nal.usda.gov/10113/CAT86200091 Harlan, H. V. Philip Russell Cowan Lucille Reinbach. (1935).   Yields barley United States Canada 1927-1931.   United States Dept Agriculture, Technical Bulletin 446.   https://naldc.nal.usda.gov/download/CAT86200440/PDF Wiebe, Gustav . Philip Russell Cowan, Lucille Reinbach-Welch. (1940).   Yields barley varieties United States Canada 1932-36.   United States Dept Agriculture, Technical Bulletin 735.   https://books.google.com/books?id=OUfxLocnpKkC&pg=PA19 Wiebe, Gustav . Philip Russell Cowan, Lucille Reinbach-Welch. (1944).   Yields barley varieties United States Canada, 1937-41.   United States Dept Agriculture, Technical Bulletin 881.   https://handle.nal.usda.gov/10113/CAT86200873","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"Immer, R. F. H. K. Hayes LeRoy Powers. (1934).   Statistical Determination Barley Varietal Adaptation.   Journal American Society Agronomy, 26, 403-419.   https://doi.org/10.2134/agronj1934.00021962002600050008x Hayes, H.K. Immer, F.R. (1942).   Methods plant breeding.   McGraw Hill. Kevin Wright. (2013).  Revisiting Immer's Barley Data.   American Statistitician, 67, 129-133.   https://doi.org/10.1080/00031305.2013.801783","code":""},{"path":"/reference/minnesota.barley.yield.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley in Minnesota at 6 sites in 1927-1936. — minnesota.barley.yield","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(minnesota.barley.yield) dat <- minnesota.barley.yield dat$yr <- factor(dat$year)  # Drop Dryland, Jeans, CompCross, MechMixture because they have less than 5 # year-loc values dat <- subset(dat, !is.element(gen_name, c(\"CompCross\",\"Dryland\",\"Jeans\",\"MechMixture\"))) dat <- subset(dat, year >= 1927 & year <= 1936) dat <- droplevels(dat)  # 1934 has huge swings from one loc to the next libs(lattice) dotplot(gen_name~yield|site, dat, groups=yr,         main=\"minnesota.barley.yield\",         auto.key=list(columns=5), scales=list(y=list(cex=.5))) } # }"},{"path":"/reference/montgomery.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"Uniformity trial wheat Nebraska Experiment Station, 1909 & 1911.","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"","code":"data(\"montgomery.wheat.uniformity\")"},{"path":"/reference/montgomery.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"data frame 448 observations following 3 variables. year year col column row row yield yield, grams","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"Experiments conducted Nebraska Experiment Station. field sown Turkey winter wheat fall 1908   harvested 1909.  drill, 5.5 feet wide, driven across   first series 14 blocks, boundaries blocks later   established.  series sown way, space allowed   blocks.  block 5.5 ft square. experiment done 3 times harvests 1909, 1910, 1911.   simple heatmap 3 years' yields shown Montgomery   (1912), figure 3, p. 178. 1909 data given Montgomery (1913), figure 10, page 37.   NOTE: North right side diagram (determined   comparing yield values fertility map Montgomery 1912, p. 178). 1910 data available. 1911 data given Montgomery (1912), figure 1, page   165. NOTE: North top diagram. Field width: 14 plots * 5.5 feet Field length: 16 blocks * 5.5 feet Surface & Pearl (1916) give simple method adjusting yield due   fertility effects using 1909 data.","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"E. G. Montgomery (1912).   Variation Yield Methods Arranging Plats Secure   Comparative Results.   Twenty-Fifth Annual Report Agricultural Experiment Station Nebraska, 164-180.   https://books.google.com/books?id=M-5BAQAAMAAJ&pg=RA4-PA164 E. G. Montgomery (1913).   Experiments Wheat Breeding: Experimental Error Nursery   Variation Nitrogen Yield.   U.S. Dept Agriculture, Bureau Plant Industry, Bulletin 269.   Figure 10, page 37.   https://doi.org/10.5962/bhl.title.43602","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"Surface & Pearl, (1916).   method correcting soil heterogeneity variety tests.   Journal Agricultural Research, 5, 22, 1039-1050.   Figure 2.   https://books.google.com/books?id=BVNyoZXFVSkC&pg=PA1039","code":""},{"path":"/reference/montgomery.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat, 2 years on the same land — montgomery.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(montgomery.wheat.uniformity)   dat <- montgomery.wheat.uniformity   dat09 <- subset(dat, year==1909)   dat11 <- subset(dat, year==1911)    # Match the figures of Montgomery 1912 Fig 3, p. 178   libs(desplot)   desplot(dat09, yield ~ col*row,           aspect=1, # true aspect           main=\"montgomery.wheat.uniformity - 1909 yield\")   desplot(dat, yield ~ col*row, subset= year==1911,           aspect=1, # true aspect           main=\"montgomery.wheat.uniformity - 1911 yield\")    # Surface & Pearl adjust 1909 yield for fertility effects.   # They calculate smoothed yield as (row sum)*(column sum)/(total)   # and subtract this from the overall mean to get 'deviation'.   # We can do something similar with a linear model with rows and columns   # as factors, then predict yield to get the smooth trend.   # Corrected yield = observed - deviation = observed - (smooth-mean)      m1 <- lm(yield ~ factor(col) + factor(row), data=dat09)   dev1 <- predict(m1) - mean(dat09$yield)   # Corrected.  Similar (but not exact) to Surface, fig 2.   dat09$correct <- round(dat09$yield - dev1,0)    libs(desplot)   desplot(dat09, yield ~ col*row,           shorten=\"none\", text=yield,           main=\"montgomery.wheat.uniformity 1909 observed\")   desplot(dat09, correct ~ col*row, text=correct,           cex=0.8, shorten=\"none\",           main=\"montgomery.wheat.uniformity 1909 corrected\")   # Corrected yields are slightly shrunk toward overall mean   plot(correct~yield,dat09, xlim=c(350,1000), ylim=c(350,1000))   abline(0,1)    } # }"},{"path":"/reference/moore.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"Uniformity trials pole beans, bush beans, sweet corn, carrots,   spring fall cauliflower Washington, 1952-1955.","code":""},{"path":"/reference/moore.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"data frame following columns minimum.  datasets   additional trait column. row row col column yield yield (pounds)","code":""},{"path":"/reference/moore.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"trials grown sandy loam soil Puyallup valley   Washington.  experiments gradient soil fertility   evident. Moore & Darroch appear assigned 4 treatments   plots used residual variation calculate CV.    examples 'raw' CV calculated always higher   CV given Moore & Darroch. Blue Lake Pole Beans. Conducted 1952. Seven pickings made 5-day intervals.   Table 26. Field width: 12 rows x 5 feet = 60 feet. Field length: 12 ranges x 10 feet = 120 feet. Bush Beans. Conducted 1955. Two harvests. Table 27. Field width: 24 rows x 3 feet = 72 feet. Field length: 24 ranges x 5 feet = 120 feet. Sweet Corn. Conducted 1952. Table 28-29. Field width: 24 rows x 3 feet = 72 feet. Field length: 12 ranges x 10 feet = 120 feet. Carrot. Conducted 1952. Table 30. Field width: 24 rows * 1.5 feet = 36 feet. Field length: 12 ranges * 5 feet = 60 feet. Spring Cauliflower. Conducted spring 1951.  Five harvests. Table 31-32. Field width: 12 rows x 3 feet = 36 feet. Field length: 10 plants * 1.5 feet * 20 ranges = 300 feet. Fall Cauliflower. Conducted fall 1951. Five harvests. Table 33-34. Field width: 12 rows x 3 feet = 36 feet. Field length: 10 plants * 1.5 feet * 20 ranges = 300 feet.","code":""},{"path":"/reference/moore.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"Moore, John F Darroch, JG. (1956).   Field plot technique Blue Lake pole beans, bush beans, carrots,   sweet corn, spring fall cauliflower, page 25-30.   Washington Agricultural Experiment Stations, Institute Agricultural   Sciences, State College Washington.   https://babel.hathitrust.org/cgi/pt?id=uiug.30112019919072&view=1up&seq=33&skin=2021","code":""},{"path":"/reference/moore.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"None.","code":""},{"path":"/reference/moore.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of pole beans, bush beans, sweet corn, carrots, spring and fall cauliflower — moore.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      cv <- function(x) sd(x)/mean(x)    libs(desplot)      # Pole Bean   data(moore.polebean.uniformity)   cv(moore.polebean.uniformity$yield) # 8.00. Moore says 6.73.   desplot(moore.polebean.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=120/60, # true aspect           main=\"moore.polebean.uniformity - yield\")    # Bush bean   data(moore.bushbean.uniformity)   cv(moore.bushbean.uniformity$yield) # 12.1. Moore says 10.8   desplot(moore.bushbean.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=120/72, # true aspect           main=\"moore.bushbean.uniformity - yield\")    # Sweet corn   data(moore.sweetcorn.uniformity)   cv(moore.sweetcorn.uniformity$yield) # 17.5. Moore says 13.6   desplot(moore.sweetcorn.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=120/72, # true aspect           main=\"moore.sweetcorn.uniformity - yield\")   ## desplot(moore.sweetcorn.uniformity, ears~col*row,   ##         flip=TRUE, tick=TRUE, aspect=120/72, # true aspect   ##         main=\"moore.sweetcorn.uniformity - ears\")   ## libs(lattice)   ## xyplot(yield ~ ears, moore.sweetcorn.uniformity)      libs(desplot)   # Carrot   data(moore.carrot.uniformity)   cv(moore.carrot.uniformity$yield) # 33.4. Moore says 27.6   desplot(moore.carrot.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=60/36, # true aspect           main=\"moore.carrot.uniformity - yield\")    libs(desplot)   # Spring cauliflower   data(moore.springcauliflower.uniformity)   cv(moore.springcauliflower.uniformity$yield) # 21. Moore says 19.5   desplot(moore.springcauliflower.uniformity, yield~col*row,           flip=TRUE, tick=TRUE, aspect=300/36, # true aspect           main=\"moore.springcauliflower.uniformity - yield\")   ## desplot(moore.springcauliflower.uniformity, heads~col*row,    ##         flip=TRUE, tick=TRUE, aspect=300/36, # true aspect   ##         main=\"moore.springcauliflower.uniformity - heads\")   ## libs(lattice)   ## xyplot(yield ~ heads, moore.springcauliflower.uniformity)    libs(desplot)   # Fall cauliflower   data(moore.fallcauliflower.uniformity)   cv(moore.fallcauliflower.uniformity$yield) # 17.7. Moore says 17.0   desplot(moore.fallcauliflower.uniformity, yield~col*row,            flip=TRUE, tick=TRUE, aspect=300/36, # true aspect           main=\"moore.fallcauliflower.uniformity - yield\")   ## desplot(moore.fallcauliflower.uniformity, heads~col*row,    ##         flip=TRUE, tick=TRUE, aspect=300/36, # true aspect   ##         main=\"moore.fallcauliflower.uniformity - heads\")   ## libs(lattice)   ## xyplot(yield ~ heads, moore.fallcauliflower.uniformity)    } # }"},{"path":"/reference/nagai.strawberry.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of strawberry — nagai.strawberry.uniformity","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"Uniformity trial strawberry Brazil.","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"","code":"data(\"nagai.strawberry.uniformity\")"},{"path":"/reference/nagai.strawberry.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"data frame 432 observations following 3 variables. row row col column yield yield, grams/plot","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"uniformity trial strawberry, Jundiai, Brazil, April 1976. spacing plants rows 0.3 m. Test area 233.34 m^2.   18 rows 144 plants. plat consisted 6 consecutive plants.   432 plats, 0.54 m^2. Field length: 18 rows * 0.3 m = 5.4 m. Field width: 24 columns * 6 plants * 0.3 m = 43.2 m.","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"Violeta Nagai (1978).   Tamanho da parcela e numero de repeticoes em experimentos com morangueiro (Plot size number repetitions experiments strawberry).   Bragantia, 37, 71-81. Table 2, page 75.   https://dx.doi.org/10.1590/S0006-87051978000100009","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"None","code":""},{"path":"/reference/nagai.strawberry.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of strawberry — nagai.strawberry.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(nagai.strawberry.uniformity)   dat <- nagai.strawberry.uniformity      # CV matches Nagai   # with(dat, sd(yield)/mean(yield))   # 23.42      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(5.4)/(43.2), # true aspect           main=\"nagai.strawberry.uniformity\") } # }"},{"path":"/reference/nair.turmeric.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of turmeric. — nair.turmeric.uniformity","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"Uniformity trial turmeric India, 1984.","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"","code":"data(\"nair.turmeric.uniformity\")"},{"path":"/reference/nair.turmeric.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"data frame 864 observations following 3 variables. row row ordinate col column ordinate yield yield, grams per plot","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"experiment conducted College Horticulture, Vellanikkara,   India, 1984. crop grown raised beds. gross experimental area 74.2 m long x 15.2 m wide. Small   elevated beds 0.6 m x 1.5 m raised providing channels 0.4 m   around bed. One row beds around experiment   discarded eliminate border effects. discarding borders,   432 beds experiment. time harvest,   bed divided equal plots size .6 m x .75 m, yield   plot recorded. Field map page 64 Nair.   Nair focused mostly statistical   methods discuss actual experimental results   much detail. excess number plots 0 yield. Field length: 14 plots * .6 m + 13 alleys * .4 m = 13.6 m Field width: 72 plots * .75 m + 35 alleys * .4 m = 68 m Data found appendix.","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"Nair, B. Gopakumaran  (1984).   Optimum plot size field experiments turmeric.   Thesis, Kerala Agriculture University.   http://hdl.handle.net/123456789/7829","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"None.","code":""},{"path":"/reference/nair.turmeric.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of turmeric. — nair.turmeric.uniformity","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(nair.turmeric.uniformity)   dat <- nair.turmeric.uniformity    libs(lattice)   qqmath( ~ yield, dat)   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=13.6/68,           main=\"nair.turmeric.uniformity\")  } # }"},{"path":"/reference/narain.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — narain.sorghum.uniformity","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"Uniformity trial sorghum Pakistan, 1936.","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"","code":"data(\"narain.sorghum.uniformity\")"},{"path":"/reference/narain.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"data frame 160 observations following 3 variables. row row col column yield yield, maunds per 1/40 acre","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"uniformity trial chari (sorghum) Rawalpindi Agricultural   Station (Pakistan) kharif (monsoon season) 1936. plot   36 feet 30.25 feet.  source document describe   orientation plots, fertility map shown Narain figure   1 shows plots taller wide. Field width: 10 plots * 30.25 feet Field length: 16 plots * 36 feet","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"R. Narain . Singh, (1940).   Note Shape Blocks Field Experiments.   Ind. J. Agr. Sci., 10, 844-853. Page 845.   https://archive.org/stream/.ernet.dli.2015.271745","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"None","code":""},{"path":"/reference/narain.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — narain.sorghum.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(narain.sorghum.uniformity)   dat <- narain.sorghum.uniformity      # Narain figure 1   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=(16*36)/(10*30.25),           main=\"narain.sorghum.uniformity\")    } # }"},{"path":"/reference/nass.corn.html","id":null,"dir":"Reference","previous_headings":"","what":"U.S. historical crop yields by state — nass.corn","title":"U.S. historical crop yields by state — nass.corn","text":"Yields acres harvested state major agricultural   crops United States, approximately 1900 2011.   Crops include: barley, corn, cotton, hay, rice, sorghum, soybeans, wheat.","code":""},{"path":"/reference/nass.corn.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"U.S. historical crop yields by state — nass.corn","text":"","code":"nass.barley   nass.corn   nass.cotton   nass.hay   nass.sorghum   nass.wheat   nass.rice   nass.soybean"},{"path":"/reference/nass.corn.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"U.S. historical crop yields by state — nass.corn","text":"year year state state factor acres acres harvested yield average yield","code":""},{"path":"/reference/nass.corn.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"U.S. historical crop yields by state — nass.corn","text":"cautious yield values states small acres harvested. Yields bushels/acre, except: cotton pounds/acre, hay tons/acre,   rice pounds/acre. crop separate dataset: nass.barley, nass.corn, nass.cotton,   nass.hay, nass.sorghum, nass.wheat, nass.rice, nass.soybean.","code":""},{"path":"/reference/nass.corn.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"U.S. historical crop yields by state — nass.corn","text":"United States Department Agriculture,   National Agricultural Statistics Service.   https://quickstats.nass.usda.gov/","code":""},{"path":"/reference/nass.corn.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"U.S. historical crop yields by state — nass.corn","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(nass.corn) dat <- nass.corn  # Use only states that grew at least 100K acres of corn in 2011 keep <- droplevels(subset(dat, year == 2011 & acres > 100000))$state dat <- droplevels(subset(dat, is.element(state, keep)))  # Acres of corn grown each year libs(lattice) xyplot(acres ~ year|state, dat, type='l', as.table=TRUE,        main=\"nass.corn: state trends in corn acreage\")  ## Plain levelplot, using only states ## libs(reshape2) ## datm <- acast(dat, year~state, value.var='yield') ## redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) ## levelplot(datm, aspect=.7, col.regions=redblue, ##           main=\"nass.corn\", ##           scales=list(x=list(rot=90, cex=.7)))  # Model the rate of genetic gain in Illinois as a piecewise regression # Breakpoints define periods of open-pollinated varieties, double-cross, # single-cross, and transgenic hybrids.  dil <- subset(nass.corn, state==\"Illinois\" & year >= 1900) m1 <- lm(yield ~ pmin(year,1932) + pmax(1932, pmin(year, 1959)) +          pmax(1959, pmin(year, 1995)) + pmax(1995, year), dil) signif(coef(m1)[-1],3) # Rate of gain for each segment plot(yield ~ year, dil, main=\"nass.corn: piecewise linear model of Illinois corn yields\") lines(dil$year, fitted(m1)) abline(v=c(1932,1959,1995), col=\"wheat\")  } # }"},{"path":"/reference/nebraska.farmincome.html","id":null,"dir":"Reference","previous_headings":"","what":"Nebraska farm income in 2007 by county — nebraska.farmincome","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"Nebraska farm income 2007 county","code":""},{"path":"/reference/nebraska.farmincome.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"data frame 93 observations following 4 variables. county county crop crop income, thousand dollars animal livestock poultry income, thousand dollars area area county, square miles","code":""},{"path":"/reference/nebraska.farmincome.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"variables county : Value farm products sold - crops (NAICS) 2007 (adjusted) Value farm products sold - livestock, 2007 (adjusted). Area square miles. Note: Cuming county important beef-producing county.   counties reported protect privacy.   Western Nebraska dryer lower income.   South-central Nebraska irrigated higher crop income per   square mile.","code":""},{"path":"/reference/nebraska.farmincome.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"U.S. Department Agriculture-National Agriculture Statistics   Service. https://censtats.census.gov/usa/usa.shtml","code":""},{"path":"/reference/nebraska.farmincome.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Nebraska farm income in 2007 by county — nebraska.farmincome","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(nebraska.farmincome) dat <- nebraska.farmincome  libs(maps, mapproj, latticeExtra) # latticeExtra for mapplot  dat$stco <- paste0('nebraska,', dat$county) # Scale to million dollars per county dat <- transform(dat, crop=crop/1000, animal=animal/1000)  # Raw, county-wide incomes.  Note the outlier Cuming county redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) mapplot(stco ~ crop + animal, data = dat, colramp=redblue,         main=\"nebraska.farmincome\",         xlab=\"Farm income from animals and crops (million $ per county)\",         scales = list(draw = FALSE),          map = map('county', 'nebraska', plot = FALSE, fill = TRUE,           projection = \"mercator\") )  # Now scale to income/mile^2 dat <- within(dat, {   crop.rate <- crop/area   animal.rate <- animal/area }) # And use manual breakpoints. mapplot(stco ~ crop.rate + animal.rate, data = dat, colramp=redblue,         main=\"nebraska.farmincome: income per square mile (percentile breaks)\",         xlab=\"Farm income (million $ / mi^2) from animals and crops\",         scales = list(draw = FALSE),          map = map('county', 'nebraska', plot = FALSE, fill = TRUE,           projection = \"mercator\"),         # Percentile break points         # breaks=quantile(c(dat$crop.rate, dat$animal.rate),         #                 c(0,.1,.2,.4,.6,.8,.9,1), na.rm=TRUE)         # Fisher-Jenks breakpoints via classInt package         # breaks=classIntervals(na.omit(c(dat$crop.rate, dat$animal.rate)),         #                       n=7, style='fisher')$brks         breaks=c(0,.049, .108, .178, .230, .519, .958, 1.31))  } # }"},{"path":"/reference/nonnecke.peas.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of canning peas — nonnecke.peas.uniformity","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"Uniformity trial canning peas southern Alberta, 1957.","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"","code":"data(\"nonnecke.peas.uniformity\")"},{"path":"/reference/nonnecke.peas.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"data frame 540 observations following 5 variables. block block factor row row col column vines vines weight, pounds peas shelled peas weight, pounds","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"Width basic plot 10 feet, length 5 feet, limited   viner. two blocks/locations, planting consisted 18 rows   (15 rows harvested) 10 feet wide 90 feet   long. Rows separated 7 foot bare ground facilitate   harvesting. Nonnecke 1960 shows map one block. Plots harvested five foot mower. Vines   plot weighed, shelled.  two blocks/locations   side side combined Nonnecke. optimum plot size found   5 feet long 10 feet wide. Field width: 15 rows * 10 ft/row + 14 gaps * 7 ft/gap = 248 feet Field length: 18 plots * 5 ft/plot = 90 feet","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"Ib Libner Nonnecke. 1958.   Yield variability sweet corn canning peas affected plot size shape.   Thesis Oregon State College.   https://hdl.handle.net/1957/23367","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":". L. Nonnecke, 1960.   precision field experiments vegetable crops influenced plot block size shape: II. Canning peas.   Canadian Journal Plant Science, 40(2): 396-404.   https://doi.org/10.4141/cjps60-053","code":""},{"path":"/reference/nonnecke.peas.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of canning peas — nonnecke.peas.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)      data(nonnecke.peas.uniformity)   dat <- nonnecke.peas.uniformity      libs(desplot)   desplot(dat, vines~col*row|block,           tick=TRUE, flip=TRUE, aspect=248/90, # true aspect           main=\"nonnecke.peas.uniformity - vines\")   desplot(dat, peas~col*row|block,           tick=TRUE, flip=TRUE, aspect=248/90, # true aspect           main=\"nonnecke.peas.uniformity - peas\")    libs(lattice)   xyplot(peas~vines|block,dat,          xlab=\"vine weight\", ylab=\"shelled pea weight\",          main=\"nonnecke.peas.uniformity\")  } # }"},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"Uniformity trials sweet corn Alberta, 1956.","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"","code":"data(\"nonnecke.sweetcorn.uniformity\")"},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"data frame: loc location row row col column yield yield marketable ears, pounds","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"Experiments conducted three locations Southern Alberta   Lethbridge, Vauxhall, Cranford 1956. Plot layout 32 rows,   179 feet long, allowing 18 ten-foot plots per row. Rows 3   feet apart, thinned one foot plants.  double guard row   surrounded entire plot.  two persons assigned   harvest corn locations.  576 plots harvested   one day. Optimal plot sizes found 10ft x 6ft 20ft   3ft. R data uses row/column plot/row. Field width: 18 plots * 10 ft = 180 feet Field length: 32 rows * 3 ft = 96 feet","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"Ib Libner Nonnecke. 1958.   Yield variability sweet corn canning peas affected plot size shape.   Thesis Oregon State College.   https://hdl.handle.net/1957/23367","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":". L. Nonnecke, 1959.   precision field experiments vegetable crops influenced plot block size shape: . Sweet corn.   Canadian Journal Plant Science, 39(4): 443-457. Tables 1-7.   https://doi.org/10.4141/cjps59-061","code":""},{"path":"/reference/nonnecke.sweetcorn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sweet corn — nonnecke.sweetcorn.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)      # Corn 1   data(nonnecke.sweetcorn.uniformity)   dat <- nonnecke.sweetcorn.uniformity    libs(desplot)   desplot(dat, yield~col*row|loc,           flip=TRUE, tick=TRUE, aspect=96/180, # true aspect           main=\"nonnecke.sweetcorn.uniformity\")      } # }"},{"path":"/reference/obsi.potato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"Uniformity trial potato Africa 2001","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"","code":"data(\"obsi.potato.uniformity\")"},{"path":"/reference/obsi.potato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"data frame 2569 observations following 4 variables. loc location, 2 levels row row col column yield yield, kg/m^2","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"Data collected potato uniformity trials Hollota (L1) Kulumsa (L2).   field 0.15 hectares. field, 75cm rows 60cm plants. basic   units harvested 1.2m x 1.5m. clear way plots   oriented field respect rows columns. location L1, plot (10,7) 22.5 source document,   changed 2.25 electronic data. Hollota: Field width: 26 * 1.2 m Field length: 63 rows * 1.5 m Note horizontal banding 8 9 rows location L1. Kulumsa Field width: 19 * 1.2 m Field length: 49 * 1.5 m","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"Dechassa Obsi. 2008.   Application Spatial Modeling Study Soil Fertility Pattern.   MS Thesis, Addis Ababa University. Page 122-125.   https://etd.aau.edu.et/handle/123456789/3221","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"None.","code":""},{"path":"/reference/obsi.potato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of potato in Africa 2001 — obsi.potato.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(obsi.potato.uniformity) dat <- obsi.potato.uniformity    # Mean plot yield according to Obsi p. 54   # libs(dplyr)   # dat <- group_by(dat, loc)   # summarize(dat, yield=mean(yield))   ##   loc   yield   ##   <fct> <dbl>   ## 1 L1     2.54 # Obsi says 2.55   ## 2 L2     5.31 # Obsi says 5.36  libs(desplot) desplot(dat, yield ~ col*row, subset=loc==\"L1\",   main=\"obsi.potato.uniformity - loc L1\",   flip=TRUE, tick=TRUE) desplot(dat, yield ~ col*row, subset=loc==\"L2\",   main=\"obsi.potato.uniformity - loc L2\",   flip=TRUE, tick=TRUE) } # }"},{"path":"/reference/odland.soybean.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Uniformity trials soy hay soybeans Virginia Experiment   Station, 1925-1926.","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Data frames 3 variables. row row col column yield yield: hay tons/acre, beans bushels/acre","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Grown West Virginia Experiment Station 1925 & 1926. Soy forage hay: 1925 crop harvested forage, 42 rows, 200 feet long.   Yields 8-foot plats recorded nearest 0.1 tons. Field width: 42 plots * 30 / 12in/ft = 105 ft Field length: 24 plots * 8 feet = 192 feet + border = total 200 feet. Note, hay data Odland & Garber measured 0.1 tons,   converted tons . Soy beans: Soybeans planted rows 30 inches apart.   1926 crop harvested seed, 55 rows, 232 feet long.   Yields 8-foot plats recorded.   1926, data last row page 96 seems missing. Field width: 55 plots * 30 / 12in/ft = 137.5 feet Field length: 28 plots * 8 feet = 224 feet + border = total 232 feet. Odland Garber provide agronomic context yield variation.","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"Odland, T.E. Garber, R.J. (1928).   Size Plat Number Replications Field Experiments   Soybeans.   Agronomy Journal, 20, 93–108.   https://doi.org/10.2134/agronj1928.00021962002000020002x","code":""},{"path":"/reference/odland.soybean.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of soy hay and soybeans — odland.soybean.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      libs(desplot)    data(odland.soyhay.uniformity)   dat1 <- odland.soyhay.uniformity   desplot(dat1, yield ~ col*row,           flip=TRUE, aspect=200/105, # true aspect           main=\"odland.soyhay.uniformity\")    data(odland.soybean.uniformity)   dat2 <- odland.soybean.uniformity   desplot(dat2, yield ~ col*row,           flip=TRUE, aspect = 232/137,            main=\"odland.soybean.uniformity\")    } # }"},{"path":"/reference/omer.sorghum.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"Multi-environment trial sorghum, 6 environments","code":""},{"path":"/reference/omer.sorghum.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"","code":"data(\"omer.sorghum\")"},{"path":"/reference/omer.sorghum.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"data frame 432 observations following 4 variables. env environment rep replication gen genotype factor yield yield, kg/ha","code":""},{"path":"/reference/omer.sorghum.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"Trials conducted Sudan, 3 years 2 locations, 4 reps RCBD   location. year location combined form 6   environments. environments given data,   individual year location.","code":""},{"path":"/reference/omer.sorghum.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"Siraj Osman Omer, Abdel Wahab Hassan Abdalla, Mohammed Hamza Mohammed, Murari Singh (2015).   Bayesian estimation genotype--environment interaction sorghum variety trials   Communications Biometry Crop Science, 10 (2), 82-95. Electronic data provided Siraj Osman Omer.","code":""},{"path":"/reference/omer.sorghum.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"None.","code":""},{"path":"/reference/omer.sorghum.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of sorghum, 6 environments — omer.sorghum","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(omer.sorghum) dat <- omer.sorghum  # REML approach libs(lme4) libs(lucid)  # 1 loc, 2 years. Match Omer table 1. m1 <- lmer(yield ~ 1 + env + (1|env:rep) + (1|gen) + (1|gen:env),            data=subset(dat, is.element(env, c('E2','E4')))) vc(m1) ##      grp        var1 var2    vcov  sdcor ##  gen:env (Intercept) <NA> 17050   130.6 ##      gen (Intercept) <NA>  2760    52.54 ##  env:rep (Intercept) <NA>   959.1  30.97 ## Residual        <NA> <NA> 43090   207.6  # 1 loc, 3 years. Match Omer table 1. m2 <- lmer(yield ~ 1 + env + (1|env:rep) + (1|gen) + (1|gen:env),            data=subset(dat, is.element(env, c('E2','E4','E6')))) vc(m2) ##      grp        var1 var2  vcov  sdcor ##  gen:env (Intercept) <NA> 22210 149 ##      gen (Intercept) <NA>  9288  96.37 ##  env:rep (Intercept) <NA>  1332  36.5 ## Residual        <NA> <NA> 40270 200.7  # all 6 locs. Match Omer table 3, frequentist approach m3 <- lmer(yield ~ 1 + env + (1|env:rep) + (1|gen) + (1|gen:env),            data=dat) vc(m3) ##       grp        var1 var2  vcov  sdcor ##   gen:env (Intercept) <NA> 21340 146.1 ##   env:rep (Intercept) <NA>  1152  33.95 ##       gen (Intercept) <NA>  1169  34.2 ##  Residual        <NA> <NA> 24660 157 } # }"},{"path":"/reference/onofri.winterwheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"Multi-environment trial winter wheat, 7 years, 8 gen","code":""},{"path":"/reference/onofri.winterwheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"","code":"data(\"onofri.winterwheat\")"},{"path":"/reference/onofri.winterwheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"data frame 168 observations following 5 variables. year year, numeric block block, 3 levels plot plot, numeric gen genotype, 7 levels yield yield plot","code":""},{"path":"/reference/onofri.winterwheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"Yield 8 durum winter wheat varieties across 7 years 3 reps. Downloaded electronic version Nov 2015:   https://www.casaonofri./Biometry/index.html Used permission Andrea Onofri.","code":""},{"path":"/reference/onofri.winterwheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"Andrea Onofri, Egidio Ciriciofolo (2007).   Using R Perform AMMI Analysis Agriculture Variety Trials.   R News, Vol. 7, . 1, pp. 14-19.","code":""},{"path":"/reference/onofri.winterwheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"F. Mendiburu.   AMMI.   https://tarwi.lamolina.edu.pe/~fmendiburu/AMMI.htm . Onofri.   https://accounts.unipg./~onofri/RTutorial/CaseStudies/WinterWheat.htm","code":""},{"path":"/reference/onofri.winterwheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of winter wheat, 7 years — onofri.winterwheat","text":"","code":"library(agridat) data(onofri.winterwheat) dat <- onofri.winterwheat dat <- transform(dat, year=factor(dat$year))  m1 <- aov(yield ~ year + block:year + gen + gen:year, dat) anova(m1) # Matches Onofri figure 1 #> Analysis of Variance Table #>  #> Response: yield #>            Df  Sum Sq Mean Sq  F value    Pr(>F)     #> year        6 159.279 26.5466 178.3996 < 2.2e-16 *** #> gen         7  11.544  1.6491  11.0824 2.978e-10 *** #> year:block 14   3.922  0.2801   1.8826   0.03738 *   #> year:gen   42  27.713  0.6598   4.4342 6.779e-10 *** #> Residuals  98  14.583  0.1488                        #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1  libs(agricolae) m2 <- AMMI(dat$year, dat$gen, dat$block, dat$yield) plot(m2) title(\"onofri.winterwheat - AMMI biplot\")"},{"path":"/reference/ortiz.tomato.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"Multi-environment trial tomato Latin America, weight/yield environmental covariates","code":""},{"path":"/reference/ortiz.tomato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"","code":"data(\"ortiz.tomato.covs\")   data(\"ortiz.tomato.yield\")"},{"path":"/reference/ortiz.tomato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"ortiz.tomato.covs data frame 18 observations following 18 variables. env environment Day degree days (base 10) Dha days harvest Driv drivings (0/1) ExK extra potassium (kg / ha) ExN extra nitrogen (kg / ha) ExP extra phosphorous (kg / ha) Irr irrigation (0/1) K potassium (/100 g) Lat latitude Long longitude MeT mean temperature (C) MnT min temperature (C) MxT max temperature (C) OM organic matter (percent) P phosphorous (ppm) pH soil pH Prec precipitation (mm) Tri trimming (0/1) ortiz.tomato.yield data frame 270 observations following 4 variables. env environment gen genotype yield marketable fruit yield t/ha weight fruit weight, g","code":""},{"path":"/reference/ortiz.tomato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"environment locations : Used permission Rodomiro Ortiz.","code":""},{"path":"/reference/ortiz.tomato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"Rodomiro Ortiz Jose Crossa Mateo Vargas Juan Izquierdo, 2007.   Studying Effect Environmental Variables Genotype x   Environment Interaction Tomato.   Euphytica, 153, 119–134.   https://doi.org/10.1007/s10681-006-9248-7","code":""},{"path":"/reference/ortiz.tomato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of tomato in Latin America, weight/yield and environmental covariates — ortiz.tomato","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(ortiz.tomato.covs) data(ortiz.tomato.yield)  libs(pls, reshape2) # Double-centered yield matrix Y <- acast(ortiz.tomato.yield, env ~ gen, value.var='yield') Y <- sweep(Y, 1, rowMeans(Y, na.rm=TRUE)) Y <- sweep(Y, 2, colMeans(Y, na.rm=TRUE))  # Standardized covariates X <- ortiz.tomato.covs rownames(X) <- X$env X <- X[,c(\"MxT\", \"MnT\", \"MeT\", \"Prec\", \"Day\", \"pH\", \"OM\", \"P\", \"K\",           \"ExN\", \"ExP\", \"ExK\", \"Trim\", \"Driv\", \"Irr\", \"Dha\")] X <- scale(X)  # Now, PLS relating the two matrices. # Note: plsr deletes observations with missing values  m1 <- plsr(Y~X) # Inner-product relationships similar to Ortiz figure 1. biplot(m1, which=\"x\", var.axes=TRUE, main=\"ortiz.tomato - env*cov biplot\") #biplot(m1, which=\"y\", var.axes=TRUE) } # }"},{"path":"/reference/pacheco.soybean.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"Yields 18 soybean genotypes 11 environments Brazil.","code":""},{"path":"/reference/pacheco.soybean.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"gen genotype, 18 levels env environment, 11 levels yield yield, kg/ha","code":""},{"path":"/reference/pacheco.soybean.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"environment used RCB design 3 reps.  means   reps shown . Used permission Robert Pacheco.","code":""},{"path":"/reference/pacheco.soybean.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"R M Pacheco, J B Duarte, R Vencovsky, J B Pinheiro, B Oliveira,   (2005). Use supplementary genotypes AMMI analysis.   Theor Appl Genet, 110, 812-818.   https://doi.org/10.1007/s00122-004-1822-6","code":""},{"path":"/reference/pacheco.soybean.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of soybean in Brazil. — pacheco.soybean","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(pacheco.soybean) dat <- pacheco.soybean  # AMMI biplot similar to Fig 2 of Pacheco et al. libs(agricolae) m1 <- with(dat, AMMI(env, gen, REP=1, yield)) bip <- m1$biplot[,1:3] # Fig 1 of Pacheco et al. with(bip, plot(yield, PC1, cex=0.0,                text(yield,PC1,labels=row.names(bip), col=\"blue\"),                xlim=c(1000,3000),main=\"pacheco.soybean - AMMI biplot\",frame=TRUE)) with(bip[19:29,], points(yield, PC1, cex=0.0,                          text(yield,PC1,labels=row.names(bip[19:29,]),                               col=\"darkgreen\")))  } # }"},{"path":"/reference/paez.coffee.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of coffee — paez.coffee.uniformity","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"Uniformity trial coffee Caldas Columbia","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"","code":"data(\"paez.coffee.uniformity\")"},{"path":"/reference/paez.coffee.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"data frame 4190 observations following 5 variables. plot plot number row row col column year year yield yield per tree, kilograms","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"field map Paez page 56, plots 1 838.   data tables page 79-97 data plots 1 900. Note: 'row' ordinate data imply rows   columns perpendicular. field map page 56 Paez shows   rows 90-degree angle compared columns,   60-degree angle compared columns.    words, columns vertical, rows sloping right   30 degrees. Paez looks blocks 1,2,...36 trees size.   Page 30 shows annual CV.","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"Gilberto Paez Bogarin (1962).   Estudios sobre tamano y forma de parcela para ensayos en cafe.   Instituto Interamericano de Ciencias Agricolas de la O.E.. Centro Tropical de Investigacion y Ensenanza para Graduados. Costa Rica.   https://hdl.handle.net/11554/1892","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"None","code":""},{"path":"/reference/paez.coffee.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of coffee — paez.coffee.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(paez.coffee.uniformity) dat <- paez.coffee.uniformity  libs(reshape2, corrgram)   datt <- acast(dat, plot ~ year)   corrgram(datt, lower.panel=panel.pts,            main=\"paez.coffee.uniformity\")   # Not quite right. The rows are not actually horizontal.  See notes above. libs(desplot) desplot(dat, yield ~ col*row,subset=year==\"Y1\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y1\") desplot(dat, yield ~ col*row,subset=year==\"Y2\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y2\") desplot(dat, yield ~ col*row,subset=year==\"Y3\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y3\") desplot(dat, yield ~ col*row,subset=year==\"Y4\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y4\") desplot(dat, yield ~ col*row,subset=year==\"Y5\",         tick=TRUE, aspect=1,         main=\"paez.coffee.uniformity - Y5\")  } # }"},{"path":"/reference/panse.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — panse.cotton.uniformity","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"Uniformity trial cotton India 1934.","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"","code":"data(\"panse.cotton.uniformity\")"},{"path":"/reference/panse.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"data frame 1280 observations following 3 variables. row row col column yield total yield per plot, grams","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"uniformity trial cotton Institute Plant Industry, Indore, India.  trial consisted 128 rows cotton spacing 14 inches   rows length 186 feet 8 inches. harvested plot 4 rows wide  4 ft 8 long, measuring 1/2000 acre. Four pickings made Nov 1933 Jan 1934. data total yields. fertility map shows appreciable variation, following   systematic pattern. Field length: 40 plots * 4 feet 8 inches = 206 feet 8 inches Field width: 32 plots * 4 rows/plot * 14 inches/row = 150 feet Conclusions: Lower error obtained plots long rows   instead across rows. data typed K.Wright Panse (1941) p. 864-865.","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"V. G. Panse (1941).   Studies technique field experiments. V. Size shape   blocks arrangements plots cotton trials.   Indian Journal Agricultural Science, 11, 850-867   https://archive.org/details/.ernet.dli.2015.271747/page/n955","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"Hutchinson, J. B. V. G. Panse (1936).   Studies technique field experiments. . Size, shape   arrangement plots cotton trials.   Indian J. Agric. Sci., 5, 523-538.   https://archive.org/details/.ernet.dli.2015.271739/page/n599 V.G. Panse P.V. Sukhatme. (1954).   Statistical Methods Agricultural Workers.   First edition page 137. Fourth edition, page 131.","code":""},{"path":"/reference/panse.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — panse.cotton.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(panse.cotton.uniformity) dat <- panse.cotton.uniformity    # match the CV of Panse 1954 # sd(dat$yield)/mean(dat$yield) * 100 # 32.1    # match the fertility map of Hutchinson, fig 1 libs(desplot) desplot(dat, yield ~ col*row,         flip=TRUE, aspect=207/150, # true aspect         main=\"panse.cotton.uniformity\")  } # }"},{"path":"/reference/parker.orange.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oranges — parker.orange.uniformity","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"Uniformity trial oranges Riverside, CA, 1921-1927.","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"","code":"data(\"parker.orange.uniformity\")"},{"path":"/reference/parker.orange.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"data frame 1364 observations following 4 variables. year year row row col column yield yield, pounds/tree plot","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"orchard naval oranges planted 1917 University   California Citrus Experiment Station Riverside.  orchard   maintained uniform conditions 10 years. Eight Washington Navel orange trees single row constituted   plot. planting distance 20 feet trees within row   24 feet rows.  Every row guard row, row 2   row 4 observational units, row 3 guard row.   example, row 2 row 4 2*24 = 48 feet.  Another way think   plot 48 feet wide, middle 24   feet harvested.  end plot one guard   tree. Including guard trees row ends, row plot 10   trees * 20 feet = 200 feet long. Field width (west-east) 10 plots * 200 feet =  2000 feet. Field length (north-south) 27 plots * 48 feet =  1296 feet. investigation variability plots included   systematic soil surveys, soil moisture, soil nitrates, inspection   differences infestation citrus nematode. None   factors considered primary cause variations   yield. 7 years uniformity trials, different treatments   applied plots. Parker et al. state soil heterogeneity considerable   first-year yields predictive future yields. Table 25 mean top volume per tree plot 1926.   Table 26 mean area trunk cross section.","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"E. R. Parker & L. D. Batchelor. (1932).   Variation Yields Fruit Trees Relation Planning Future Experiments.   Hilgardia, 7(2), 81-161. Tables 3-9.   https://doi.org/10.3733/hilg.v07n02p081","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"Batchelor, L. D. (Leon Dexter), b. 1884; Parker, E. R. (Edwin Robert), 1896-1952; McBride, Robert, d. 1927. (1928)   Studies preliminary establishment series fertilizer   trials bearing citrus grove.   Vol B451. Berkeley, Cal. : Agricultural Experiment Station   https://archive.org/details/studiesprelimina451batc","code":""},{"path":"/reference/parker.orange.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oranges — parker.orange.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(parker.orange.uniformity) dat <- parker.orange.uniformity  # Parker fig 2, field plan libs(desplot) dat$year <- factor(dat$year) # 27 rows * 48 ft x 10 cols * 200 feet desplot(dat, yield ~ col*row|year,         flip = TRUE, aspect = 27*48/(10*200), # true aspect         main = \"parker.orange.uniformity\")  # CV across plots in each year. Similar to Parker table 11 cv <- function(x) {   x <- na.omit(x)   sd(x)/mean(x) } round(100*tapply(dat$yield, dat$year, cv),2)   # Correlation of plot yields across years. Similar to Parker table 15. # Paker et al may have calculated correlation differently. libs(reshape2) libs(corrgram) dat2 <- acast(dat, row+col ~ year, value.var = 'yield') round(cor(dat2, use = \"pair\"),3) corrgram(dat2, lower = panel.pts, upper = panel.conf,          main=\"parker.orange.uniformity\")   # Fertility index. Mean across years (ignoring 1921). Parker table 16 dat3 <- aggregate(yield ~ row+col, data = subset(dat, year !=1921 ),                   FUN = mean, na.rm = TRUE) round(acast(dat3, row ~ col, value.var = 'yield'),0)  libs(desplot) desplot(dat3, yield ~ col*row,         flip = TRUE, aspect = 27*48/(10*200), # true aspect         main = \"parker.orange.uniformity - mean across years\")  } # }"},{"path":"/reference/patterson.switchback.html","id":null,"dir":"Reference","previous_headings":"","what":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"Switchback experiment dairy cattle, milk yield 4 treatments","code":""},{"path":"/reference/patterson.switchback.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"","code":"data(\"patterson.switchback\")"},{"path":"/reference/patterson.switchback.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"data frame 36 observations following 4 variables. y response, milk FCM trt treatment factor, 4 levels period period factor, 3 levls cow cow factor, 12 levels","code":""},{"path":"/reference/patterson.switchback.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"three periods.  cow assigned one treatment cycle   like T1-T2-T1, T1 treatment period P1 P3, T2   treatment period P2. four treatments. 4*3 = 12 treatment cycles represented. Data extracted Lowry, page 70.","code":""},{"path":"/reference/patterson.switchback.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"Patterson, H.D. Lucas, H.L. 1962.   Change-designs.   Technical Bulletin 147, North Carolina Agricultural Experimental Station.","code":""},{"path":"/reference/patterson.switchback.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"Lowry, S.R. 1989.   Statistical design analysis dairy nutrition experiments   improve detection milk response differences.   Proceedings Conference Applied Statistics Agriculture, 1989.   https://newprairiepress.org/agstatconference/1989/proceedings/7/","code":""},{"path":"/reference/patterson.switchback.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Switchback experiment on dairy cattle, milk yield for 4 treatments — patterson.switchback","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(patterson.switchback) dat <- patterson.switchback  # Create groupings for first treatment, second treatment datp1 <- subset(dat, period==\"P1\") datp2 <- subset(dat, period==\"P2\") dat$p1trt <- datp1$trt[match(dat$cow, datp1$cow)] dat$p2trt <- datp2$trt[match(dat$cow, datp2$cow)]                       libs(latticeExtra) useOuterStrips(xyplot(y ~ period|p1trt*p2trt, data=dat,                       group=cow, type=c('l','r'),                       auto.key=list(columns=5),                       main=\"patterson.switchback\",                       xlab=\"First/Third period treatment\",                        ylab=\"Second period treatment\"))   # Create a numeric period variable dat$per <- as.numeric(substring(dat$period,2))  # Need to use 'terms' to preserve the order of the model terms m1 <- aov(terms(y ~ cow + per:cow + period + trt, keep.order=TRUE), data=dat) anova(m1) # Match table 2 of Lowry ## Analysis of Variance Table ##           Df Sum Sq Mean Sq F value    Pr(>F) ## cow       11 3466.0 315.091 57.1773 2.258e-06 *** ## cow:per   12  953.5  79.455 14.4182 0.0004017 *** ## period     1   19.7  19.740  3.5821 0.0950382 . ## trt        3   58.3  19.418  3.5237 0.0685092 . ## Residuals  8   44.1   5.511  } # }"},{"path":"/reference/payne.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Long term rotation experiment at Rothamsted — payne.wheat","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"Long term rotation experiment Rothamsted","code":""},{"path":"/reference/payne.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"","code":"data(\"payne.wheat\")"},{"path":"/reference/payne.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"data frame 480 observations following 4 variables. rotation rotation treatment nitro nitrogen rate kg/ha year year yield metric tons per hectare","code":""},{"path":"/reference/payne.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"rotation treatments : AB = arable rotation spring barley.   AF = arable rotation bare fallow.   Ln3 = 3-year grass lay crops.   Ln8 = 8-year grass lay crops.   Lc3 = 3-year grass-clover lay crops.   Lc8 = 8-year grass-clover lay crops. full data available via CC-4.0 license :   Margaret Glendining, Paul Poulton, Andrew Macdonald, Chloe MacLaren,   Suzanne Clark (2022).   Dataset: Woburn Ley-arable experiment: yields wheat first test   crop, 1976-2018 Electronic Rothamsted Archive, Rothamsted Research.   https://doi.org/10.23637/wrn3-wheat7618-01 data used subset appearing paper Payne.","code":""},{"path":"/reference/payne.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"Payne, R. (2013)   Design analysis long-term rotation experiments.   Agronomy Journal, 107, 772-785.   https://doi.org/10.2134/agronj2012.0411","code":""},{"path":"/reference/payne.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"None","code":""},{"path":"/reference/payne.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Long term rotation experiment at Rothamsted — payne.wheat","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(payne.wheat)   dat <- payne.wheat    # make factors   dat <- transform(dat,                    rotf = factor(rotation),                    yrf = factor(year),                    nitrof = factor(nitro))        # visualize the response to nitrogen   libs(lattice)   # Why does Payne use nitrogen factor, when it is an obvious polynomial term?   # Probably doesn't matter too much.   xyplot(yield ~ nitro|yrf, dat,          groups=rotf, type='b',          auto.key=list(columns=6),          main=\"payne.wheat\")      # What are the long-term trends?  Yields are decreasing   xyplot(yield ~ year | rotf, data=dat, groups=nitrof,          type='l', auto.key=list(columns=4))    if(require(\"asreml\", quietly=TRUE)){     libs(asreml) # Model 5: drop 3-way interaction and return to pol function (easier prediction)     m5 <- asreml(yield ~ rotf * nitrof * pol(year,2) -                    (rotf:nitrof:pol(year,2)),                  data=dat,                  random = ~yrf,                  residual = ~ dsum( ~ units|yrf))     summary(m5)$varcomp # Table 7 of Payne     # lucid::vc(m5)      # Table 8 of Payne     wald(m5, denDF=\"default\")           # Predictions of three-way interactions from final model     p5 <- predict(m5, classify=\"rotf:nitrof:year\")     p5 <- p5$pvals # Matches Payne table 8     head(p5)          # Plot the predictions.  Matches Payne figure 1     xyplot(predicted.value ~ year | rotf, data=p5,            groups=nitrof,            ylab=\"yield t/ha\", type='l', auto.key=list(columns=5))   }    } # }"},{"path":"/reference/pearce.apple.html","id":null,"dir":"Reference","previous_headings":"","what":"Apple tree yields for 6 treatments with covariate — pearce.apple","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"Apple tree yields 6 treatments covariate previous yield.","code":""},{"path":"/reference/pearce.apple.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"data frame 24 observations following 4 variables. block block factor, 4 levels trt treatment factor, 6 levels prev previous yield boxes yield yield per plot","code":""},{"path":"/reference/pearce.apple.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"Treatment 'S' standard practice English apple orchards   keeping land clean summer. previous yield number boxes fruit, four   seasons previous application treatments.","code":""},{"path":"/reference/pearce.apple.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"S. C. Pearce (1953).   Field Experiments Fruit Trees     Perennial Plants.   Commonwealth Bureau Horticulture Plantation Crops, Farnham   Royal, Slough, England, App. IV.","code":""},{"path":"/reference/pearce.apple.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"James G. Booth, Walter T. Federer, Martin T. Wells Russell   D. Wolfinger (2009). Multivariate Variance Components Model   Analysis Covariance Designed Experiments.   Statistical Science, 24, 223-237.","code":""},{"path":"/reference/pearce.apple.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Apple tree yields for 6 treatments with covariate — pearce.apple","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(pearce.apple) dat <- pearce.apple  libs(lattice) xyplot(yield~prev|block, dat, main=\"pearce.apple\", xlab=\"previous yield\")  # Univariate fixed-effects model of Booth et al, using previous # yield as a covariate. m1 <- lm(yield ~ trt + block + prev, data=dat) # Predict values, holding the covariate at its overall mean of 8.3 newdat <- expand.grid(trt=c('A','B','C','D','E','S'),                       block=c('B1','B2','B3','B4'), prev=8.308333) newdat$pred <- predict(m1, newdata=newdat) # Average across blocks to get the adjusted mean, Booth et al. Table 1 tapply(newdat$pred, newdat$trt, mean) #        A        B        C        D        E        S # 280.4765 266.5666 274.0666 281.1370 300.9175 251.3357  # Same thing, but with blocks random libs(lme4) m2 <- lmer(yield ~ trt + (1|block) + prev, data=dat) newdat$pred2 <- predict(m2, newdata=newdat) tapply(newdat$pred2, newdat$trt, mean) #        A        B        C        D        E        S # 280.4041 266.5453 274.0453 281.3329 301.3432 250.8291  } # }"},{"path":"/reference/pearl.kernels.html","id":null,"dir":"Reference","previous_headings":"","what":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"Counts yellow/white sweet/starchy kernels 4 maize   ears 15 observers.","code":""},{"path":"/reference/pearl.kernels.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"data frame 59 observations following 6 variables. ear ear, 8-11 obs observer, 1-15 ys number yellow starchy kernels yt yellow sweet ws white starchy wt white sweet","code":""},{"path":"/reference/pearl.kernels.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"ear white sweet corn crossed ear yellow starchy   corn.  F1 kernels cross grown sample four   ears harvested. F2 kernels ears classified   15 observers white/yellow sweet/starchy. Mendelian genetics, kernels occur   ratio 9 yellow starch, 3 white starch, 3 yellow sweet,   1 white sweet. observers following positions:","code":""},{"path":"/reference/pearl.kernels.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"Raymond Pearl, 1911.   Personal Equation Breeding Experiments Involving Certain   Characters Maize, Biol. Bull., 21, 339-366.   https://www.biolbull.org/cgi/reprint/21/6/339.pdf","code":""},{"path":"/reference/pearl.kernels.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Counts of yellow/white and sweet/starchy maize kernels by 15 observers — pearl.kernels","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(pearl.kernels) dat <- pearl.kernels  libs(lattice) xyplot(ys+yt+ws+wt~obs|ear, dat, type='l', as.table=TRUE,        auto.key=list(columns=4),        main=\"pearl.kernels\", xlab=\"observer\",ylab=\"kernels\",        layout=c(4,1), scales=list(x=list(rot=90)))  # Test hypothesis that distribution is 'Mendelian' 9:3:3:1 dat$pval <- apply(dat[, 3:6], 1, function(x)                   chisq.test(x, p=c(9,3,3,1)/16)$p.val) dotplot(pval~obs|ear, dat, layout=c(1,4), main=\"pearl.kernels\",         ylab=\"P-value for test of 9:3:3:1 distribution\")  } # }"},{"path":"/reference/pederson.lettuce.repeated.html","id":null,"dir":"Reference","previous_headings":"","what":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"Repeated measurements lettuce growth 3 treatments.","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"","code":"data(\"pederson.lettuce.repeated\")"},{"path":"/reference/pederson.lettuce.repeated.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"data frame 594 observations following 4 variables. plant plant number day day observation trt treatment weight weight","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"Experiment conducted greenhouse Silver Bay, Minnesota. Plants grown hydroponically. Treatment 1 9 plants per raft. Treatment 2 18 plants, treatment 3 36 plants. response variable weight plant, roots, soil, cup, water. plants measured repeatedly beginning Dec 1, ending Jan 9, plants harvested.","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"Levi Dawson Pederson (2015). Mixed Model Analysis Repeated Measures Lettuce Growth Thesis University Minnesota. Appendix C. https://scse.d.umn.edu/sites/scse.d.umn.edu/files/pedersonprojectthesis.pdf","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"None","code":""},{"path":"/reference/pederson.lettuce.repeated.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Repeated measurements of lettuce growth — pederson.lettuce.repeated","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(pederson.lettuce.repeated) dat <- pederson.lettuce.repeated  libs(lattice) dat <- dat[order(dat$day),] xyplot(weight ~ day|trt, dat, type='l', group=plant, layout=c(3,1), main=\"pederson.lettuce.repeated\")  # Pederson used this SAS MIXED model for unstructured covariance # proc mixed data=Project.Spacingdata;  # class trt plant day;  # model weight=trt day trt*day;  # repeated day / subject=plant type=un r rcorr;     # This should give the same results as SAS, but does not. libs(nlme) dat <- transform(dat, plant=factor(plant), day=factor(day)) datg <- groupedData(weight ~ day|plant, data=dat) un1 <- gls(weight ~ trt * day, data=datg,            correlation=corSymm(value=rep(.6,55), form = ~ 1 | plant),            control=lmeControl(opt=\"optim\", msVerbose=TRUE,                               maxIter=500, msMaxIter=500)) logLik(un1)*2 # nlme has 1955, SAS had 1898.6  # Comparing the SAS results in Pederson (page 16) and the nlme results, we notice # the SAS correlations in table 5.2 are unusually low for the first # column. The nlme results have a higher correlation in the first column # and just \"look\" better un1  } # }"},{"path":"/reference/perry.springwheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"Yields wheat cultivars introduced 1860-1982.  Grown 20 environments.","code":""},{"path":"/reference/perry.springwheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"","code":"data(\"perry.springwheat\")"},{"path":"/reference/perry.springwheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"data frame 560 observations following 6 variables. yield yield, kg/ha gen genotype/cultivar factor, 28 levels env environment factor, 20 levels site site factor year year, 1979-1982 yor year release, 1860-1982","code":""},{"path":"/reference/perry.springwheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"Twenty-eight significant wheat cultivars past   century Western  Australia, grown 20 field trials 4   years Central Eastern wheat-belt Australia. Wongan Hills site separate early late sown   trials 1979 1980.  Later sowing dates generally lower   yields. Note: Although indicated original paper, may   Merredin site 1979 also early/late sowing dates. Used permission Mario D'Antuono CSIRO Publishing.","code":""},{"path":"/reference/perry.springwheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"MW Perry MF D'Antuono. (1989).   Yield improvement associated characteristics Australian   spring wheat cultivars introduced 1860 1982.   Australian Journal Agricultural Research, 40(3), 457–472.   https://www.publish.csiro.au/nid/43/issue/1237.htm","code":""},{"path":"/reference/perry.springwheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat cultivars introduced 1860-1982. — perry.springwheat","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(perry.springwheat)   dat <- perry.springwheat    libs(lattice)   xyplot(yield~yor|env, dat, type=c('p','r'), xlab=\"year of release\",          main=\"perry.springwheat\")      # Show the genetic trend for each testing location * year.   # libs(latticeExtra)   # useOuterStrips(xyplot(yield~yor|site*factor(year), dat,   #                       type=c('p','r')))     # Perry reports a rate of gain of 5.8 kg/ha/year.  No model is given.   # We fit a model with separate intercept/slope for each env   m1 <- lm(yield ~ env + yor + env:yor, data=dat)   # Average slope across environments   mean(c(coef(m1)[21], coef(m1)[21]+coef(m1)[22:40]))   ## [1] 5.496781     # ----------    # Now a mixed-effects model.  Fixed overall int/slope.  Random env int/slope.    # First, re-scale response so we don't have huge variances   dat$y <- dat$yield / 100    libs(lme4)   # Use || for uncorrelated int/slope.  Bad model.  See below.   # m2 <- lmer(y ~ 1 + yor + (1+yor||env), data=dat)   ## Warning messages:   ## 1: In checkConv(attr(opt, \"derivs\"), opt$par, ctrl = control$checkConv,  :   ##   Model failed to converge with max|grad| = 0.55842 (tol = 0.002, component 1)   ## 2: In checkConv(attr(opt, \"derivs\"), opt$par, ctrl = control$checkConv,  :   ##   Model is nearly unidentifiable: very large eigenvalue   ##  - Rescale variables?;Model is nearly unidentifiable: large eigenvalue ratio   ##  - Rescale variables?    # Looks like lme4 is having trouble with variance of intercepts   # There is nothing special about 1800 years, so change the   # intercept -- 'correct' yor by subtracting 1800 and try again.   dat$yorc <- dat$yor - 1800   m3 <- lmer(y ~ 1 + yorc + (1+yorc||env), data=dat)      # Now lme4 succeeds.  Rate of gain is 100*0.0549 = 5.49   fixef(m3)   ## (Intercept)        yorc   ##  5.87492444  0.05494464    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     m3a <- asreml(y ~ 1 + yorc, data=dat, random = ~ env + env:yorc)     lucid::vc(m3)     ##      grp        var1 var2     vcov   sdcor     ##      env (Intercept) <NA> 11.61    3.407     ##    env.1        yorc <NA>  0.00063 0.02511     ## Residual        <NA> <NA>  3.551   1.884          lucid::vc(m3a)     ##           effect component std.error z.ratio      con     ##      env!env.var  11.61     4.385        2.6 Positive     ## env:yorc!env.var   0.00063  0.000236     2.7 Positive     ##       R!variance   3.551    0.2231      16   Positive   }    } # }"},{"path":"/reference/petersen.sorghum.cowpea.html","id":null,"dir":"Reference","previous_headings":"","what":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"Intercropping experiment sorghum/cowpea.","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"","code":"data(\"petersen.sorghum.cowpea\")"},{"path":"/reference/petersen.sorghum.cowpea.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"data frame 18 observations following 5 variables. block block srows sorghum rows crows cowpea rows syield sorghum yield, kg/ha cyield cowpea yield, kg/ha","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"intercropping experiment Tanzania.  treatments consisted   four ratios sorghum rows cowpea rows 1:4, 2:3, 3:2, 4:1. sole-crop yields 5 rows per crop also given (part   blocks).","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"Roger G Petersen (1994).   Agricultural Field Experiments.   Marcel Dekker Inc, New York.   Page 372.","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"None","code":""},{"path":"/reference/petersen.sorghum.cowpea.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Intercropping experiment of sorghum/cowpea — petersen.sorghum.cowpea","text":"","code":"if (FALSE) { # \\dontrun{  libs(agridat) data(petersen.sorghum.cowpea) dat <- petersen.sorghum.cowpea  # Petersen figure 10.4a tmp <- dat   with(tmp, plot(srows, syield + cyield,                col=\"blue\", type='l', xlim=c(0,5), ylim=c(0,4000)) ) with(tmp, lines(srows, syield) ) with(tmp, lines(srows, cyield, col=\"red\") ) title(\"Cow Pea (red), Sorghum (black), Total (blue)\") title(\"petersen.sorghum.cowpea\", line=0.5)  } # }"},{"path":"/reference/piepho.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — piepho.barley.uniformity","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"Uniformity trial barley Germany","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"","code":"data(\"piepho.barley.uniformity\")"},{"path":"/reference/piepho.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"data frame 1080 observations following 5 variables. row row ordinate col column ordinate yield yield per plot","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"Uniformity trial barley Ihinger Hof farm, conducted   University Hohenheim, Germany, 2007. Note: paper Piepho says \"trial 30 rows 36   columns. Plot widths 1.90 m along rows 3.73 m along columns.\"   confirmed variograms Figure 1.   clear \"along rows\" \"along columns\" means   English. However, SAS code supplement paper, called   \"PBR_1654_sm_example1.sas\", row=1-36, col=1-30.","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"H. P. Piepho & E. R. Williams (2010).   Linear variance models plant breeding trials.   Plant Breeding, 129, 1-8.   https://doi.org/10.1111/j.1439-0523.2009.01654.x","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"None","code":""},{"path":"/reference/piepho.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — piepho.barley.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   data(piepho.barley.uniformity)    dat <- piepho.barley.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           tick=TRUE, aspect=(36*3.73)/(30*1.90),           main=\"piepho.barley.uniformity.csv\")    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,dplyr,lucid)     dat <- mutate(dat, x=factor(col), y=factor(row))     dat <- arrange(dat, x, y)        # Piepho AR1xAR1 model (in random term, NOT residual)     m1 <- asreml(data=dat,                  yield ~ 1,                   random = ~ x + y + ar1(x):ar1(y),                   residual = ~  units,                  na.action=na.method(x=\"keep\") )     m1 <- update(m1)     # Match Piepho table 3, footnote 4: .9671, .9705 for col,row correlation     # Note these parameters are basically at the boundary of the parameter     # space. Questionable fit.     lucid::vc(m1)   } } # }"},{"path":"/reference/piepho.cocksfoot.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"Multi-environment trial cock's foot, heading dates 25 varieties 7 yearsyears","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"","code":"data(\"piepho.cocksfoot\")"},{"path":"/reference/piepho.cocksfoot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"data frame 111 observations following 3 variables. gen genotype factor, 25 levels year year, numeric date heading date (days April 1)","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"data heading dates (days April 1 heading)  25 cock's foot   Dactylis glomerata varieties trials Hannover, Germany,   repeated seven years.  Values means replications. Piepho fits model similar Finlay-Wilkinson regression,   genotype environment swapped.","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"Hans-Pieter Piepho. (1999).   Fitting Regression Model Genotype--Environment Data Heading   Dates Grasses Methods Nonlinear Mixed Models.   Biometrics, 55, 1120-1128.   https://doi.org/10.1111/j.0006-341X.1999.01120.x","code":""},{"path":"/reference/piepho.cocksfoot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of cock's foot, heading dates for 25 varieties in 7 years — piepho.cocksfoot","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(piepho.cocksfoot)   dat <- piepho.cocksfoot   dat$year <- factor(dat$year)      libs(lattice)   # Gaussian, not gamma distn   densityplot(~date|year, data=dat, main=\"piepho.cocksfoot - heading date\")    if(require(\"mumm\", quietly=TRUE)){     libs(mumm) # The mumm package can reproduce Piepho's results      levelplot(date ~ year*gen, dat)     # note mp(random,fixed)     mod3 <- mumm(date ~ -1 + gen + (1|year) + mp(year, gen), dat)          # Compare to Piepho table 3, \"full maximum likelihood\"     mod3$sigmas^2 # variances for year:gen, residual match     #        year mp year:gen    Residual      # 17.70287377  0.02944158  0.49024737          # mod3$par_fix # fixed genotypes match        # mod3$sdreport # estim/stderr     #               Estimate Std. Error     # nu          49.0393183 1.55038652     # nu          42.0889493 1.67597832     # nu          45.3411252 1.59818620     # etc        # mod3$par_rand # random year:gen match     # $`mp year:gen`     #        1990        1991        1992        1993        1994        1995      #  0.10595661 -0.05298523  0.08228274 -0.09629696 -0.11045540  0.29637268    }    } # }"},{"path":"/reference/polson.safflower.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of safflower — polson.safflower.uniformity","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"Uniformity trial safflower Farmington, Utah, 1962.","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"","code":"data(\"polson.safflower.uniformity\")"},{"path":"/reference/polson.safflower.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"data frame 1716 observations following 3 variables. row row col column yield yield (grams)","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"uniformity trial safflower Utah State University field   station Farmington, Utah, 1962.   field approximately 0.5 acres size, 110 x 189 feet.   four-row planter used, 22 inches rows.   Four rows either side 12 feet ends removed   harvesting. Yield threshed grain recorded grams. Field width: (52 rows + 8 border rows) * 22 =  110 ft Field length: 33 sections * 5ft + 2 borders * 12 ft = 189 ft","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"David Polson. 1964.   Estimation Optimum Size, Shape, Replicate Number Safflower Plots Yield Trials.   Utah State University, Graduate Theses Dissertations, 2979.   Table 6, p. 52.   https://digitalcommons.usu.edu/etd/2979","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"None.","code":""},{"path":"/reference/polson.safflower.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of safflower — polson.safflower.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(polson.safflower.uniformity)   dat <- polson.safflower.uniformity      libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=189/110, # true aspect           main=\"polson.safflower.uniformity\")    libs(agricolae)   libs(reshape2)   dmat <- acast(dat, row~col, value.var=\"yield\")   # Similar to Polson fig 4.   tab <- index.smith(dmat, col=\"red\",                      main=\"polson.safflower.uniformity - Smith Index\",                      xlab=\"Plot size in number of basic plots\")      # Polson p. 25 said CV decreased from 14.3 to 4.5   # for increase from 1 unit to 90 units.  Close match.   tab <- data.frame(tab$uniformity)    # Polson only uses log(Size) < 2 in his Fig 5, obtained slope -0.63   coef(lm(log(Vx) ~ log(Size), subset(tab, Size <= 6))) # -0.70    # Polson table 2 reported labor for   # K1, number of plots, 133 hours 75   # K2, size of plot, 43.5 hours 24   # Optimum plot size   # X = b K1 / ((1-b) K2)   # Polson suggests optimum plot size 2.75 to 11 basic plots    } # }"},{"path":"/reference/ratkowsky.onions.html","id":null,"dir":"Reference","previous_headings":"","what":"Onion yields for different densities at two locations — ratkowsky.onions","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Onion yields different densities two locations","code":""},{"path":"/reference/ratkowsky.onions.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"data frame contains following columns: density planting density (plants per square meter) yield yield (g / plant) loc location, Purnong Landing Virginia","code":""},{"path":"/reference/ratkowsky.onions.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Spanish white onions.","code":""},{"path":"/reference/ratkowsky.onions.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Ratkowsky, D. . (1983).   Nonlinear Regression Modeling: Unified Practical Approach.   New York: Marcel Dekker.","code":""},{"path":"/reference/ratkowsky.onions.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"Ruppert, D., Wand, M.P. Carroll, R.J. (2003).   Semiparametric Regression. Cambridge University Press.   https://stat.tamu.edu/~carroll/semiregbook/","code":""},{"path":"/reference/ratkowsky.onions.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Onion yields for different densities at two locations — ratkowsky.onions","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(ratkowsky.onions) dat <- ratkowsky.onions  # Model inverse yield as a quadratic.  Could be better... libs(lattice) dat <- transform(dat, iyield = 1/yield) m1 <- lm(iyield ~ I(density^2)*loc, dat) dat$pred <- predict(m1)  libs(latticeExtra) foo <- xyplot(iyield ~ density, data=dat, group=loc, auto.key=TRUE,                main=\"ratkowski.onions\",ylab=\"Inverse yield\") foo + xyplot(pred ~ density, data=dat, group=loc, type='l')  } # }"},{"path":"/reference/reid.grasses.html","id":null,"dir":"Reference","previous_headings":"","what":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"Yields four grasses wide range nitrogen fertilizer,   conducted 3 years.","code":""},{"path":"/reference/reid.grasses.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"","code":"data(\"reid.grasses\")"},{"path":"/reference/reid.grasses.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"data frame 210 observations following 5 variables. nitro nitrogen, 21 numeric levels year Y1, Y2, Y3 gen genotype drymatter dry matter content protein protein content","code":""},{"path":"/reference/reid.grasses.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"Experiment Hannah Research Institute, Ayr. Single plots planted 4 different kinds grasses.  Within   plot, 21 nitrogen treatments randomized. Reid modeled dry matter yield four-parameter logistic curves   form y = - b exp(-cx^d).","code":""},{"path":"/reference/reid.grasses.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"D. Reid (1985).   comparison yield responses four grasses wide range nitrogen application rates.   J. Agric. Sci., 105, 381-387. Table 1 & 3.   https://doi.org/10.1017/S0021859600056434","code":""},{"path":"/reference/reid.grasses.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"None","code":""},{"path":"/reference/reid.grasses.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Yields of four grasses for a wide range of nitrogen fertilizer — reid.grasses","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(reid.grasses)   dat <- reid.grasses    libs(latticeExtra)   foo <- xyplot(drymatter + protein ~ nitro|year, dat, group=gen,                 auto.key=list(columns=4),                 as.table=TRUE, type=c('p','l'),                 main=\"reid.grasses\",ylab=\"drymatter/protein trait value\",                 scales=list(y=list(relation=\"free\")))   combineLimits(foo)    # devtools::run_examples does NOT like groupedData   if (0){     libs(nlme)     dat2 <- dat     dat2$indiv <- paste(dat$year, dat$gen) # individual year+genotype curves          # use all data to get initial values     inits <- getInitial(drymatter ~ SSfpl(nitro, A, B, xmid, scal), data = dat2)     inits     ##         A          B       xmid       scal      ## -4.167902  12.139796  68.764796 128.313106      xvals <- 0:800     y1 <- with(as.list(inits), SSfpl(xvals, A, B, xmid, scal))     plot(drymatter ~ nitro, dat2)     lines(xvals,y1)          # must have groupedData object to use augPred     dat2 <- groupedData(drymatter ~ nitro|indiv, data=dat2)     plot(dat2)          # without 'random', all effects are included in 'random'     m1 <- nlme(drymatter ~ SSfpl(nitro, A, B, xmid,scale),                data= dat2,                fixed= A + B + xmid + scale ~ 1,                random = A + B + xmid + scale ~ 1|indiv,                start=inits)     fixef(m1)     summary(m1)     plot(augPred(m1, level=0:1),          main=\"reid.grasses - observed/predicted data\") # only works with groupedData object   } # if(0)   } # }"},{"path":"/reference/riddle.wheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Modified Latin Square experiments of wheat — riddle.wheat","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"Modified Latin Square experiments wheat two varieties 2 years","code":""},{"path":"/reference/riddle.wheat.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"","code":"data(\"riddle.wheat\")"},{"path":"/reference/riddle.wheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"data frame 650 observations following 7 variables. expt experiment strain strain rep replicate row row (nested column) year year yield yield, grams col column (group rows)","code":""},{"path":"/reference/riddle.wheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"experiment \"Baart\" varieties 1939 another   experiment \"White Federation\" varieties 1939. experiments   repeated 1940. experimental design Modified Latin Square.   5 reps, horizontal.   5 \"columns\". rep*column contains multiple plots   strain planted 16-foot row. Field length: 5 reps * 16 feet Field width: 25 30 rows, perhaps 0.5 feet rows Riddle & Baker note: Two strains, 5129 (Baart) 1617 (White   Federation) reversed position significantly LOWER 1939   significantly HIGHER general mean 1940.","code":""},{"path":"/reference/riddle.wheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"Riddle, O. C. G. . Baker. (1944).   Biases encountered large-scale yield tests.   Hilgardia, 16, 1-14.   https://doi.org/10.3733/hilg.v16n01p001","code":""},{"path":"/reference/riddle.wheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"None","code":""},{"path":"/reference/riddle.wheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Modified Latin Square experiments of wheat — riddle.wheat","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(riddle.wheat)   dat <- riddle.wheat    datb39 <- subset(dat, expt==\"Baart\" & year==1939)   datb40 <- subset(dat, expt==\"Baart\" & year==1940)   datw39 <- subset(dat, expt==\"WhiteFed\" & year==1939)   datw40 <- subset(dat, expt==\"WhiteFed\" & year==1940)   # Match table 4, sections a, b, d, e   anova(aov(yield ~ factor(rep) + factor(col) + strain, datb39))   anova(aov(yield ~ factor(rep) + factor(col) + strain, datb40))   anova(aov(yield ~ factor(rep) + factor(col) + strain, datw39))   anova(aov(yield ~ factor(rep) + factor(col) + strain, datw40))    libs(desplot)   # Show the huge variaion between reps   dat$yrexpt <- paste0(dat$year, dat$expt)   desplot(dat, yield ~ row*rep|yrexpt, tick=TRUE, out1=col, main=\"riddle.wheat\",           aspect=(5*16)/(30*.5)) # Show the randomization was the same in each year (but not each expt). desplot(dat, strain ~ row*rep|yrexpt, tick=TRUE, out1=col, main=\"riddle.wheat\")  } # }"},{"path":"/reference/ridout.appleshoots.html","id":null,"dir":"Reference","previous_headings":"","what":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"Root counts propagated columnar apple shoots.","code":""},{"path":"/reference/ridout.appleshoots.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"","code":"data(\"ridout.appleshoots\")"},{"path":"/reference/ridout.appleshoots.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"data frame 270 observations following 4 variables. roots number roots per shoot trtn number shoots per treatment combination photo photoperiod, 8 16 bap BAP concentration, numeric","code":""},{"path":"/reference/ridout.appleshoots.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"270 micropropagated shoots columnar apple cultivar   Trajan.  rooting period, shoot tips length 1.0-1.5 cm   cultured media different concentrations cytokinin BAP   two growth chambers 8 16 hour photoperiod. response variable number roots 4 weeks 22 degrees C. Almost shoots 8 hour photoperiod rooted.  16   hour photoperiod half rooted. High BAP concentrations often inhibit root formation apples,   perhaps columnar varieties. Used permission Martin Ridout.","code":""},{"path":"/reference/ridout.appleshoots.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"Ridout, M. S., Hinde, J. P., Demetrio, C. G. B. (1998).   Models Count Data Many Zeros.   Proceedings 19th International Biometric Conference,   179-192.","code":""},{"path":"/reference/ridout.appleshoots.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"SAS. Fitting Zero-Inflated Count Data Models Using PROC GENMOD.   support.sas.com/rnd/app/examples/stat/GENMODZIP/roots.pdf","code":""},{"path":"/reference/ridout.appleshoots.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Root counts for propagated columnar apple shoots. — ridout.appleshoots","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(ridout.appleshoots) dat <- ridout.appleshoots  # Change photo and bap to factors dat <- transform(dat, photo=factor(photo), bap=factor(bap))  libs(lattice) # histogram(~roots, dat, breaks=0:18-0.5)  # For photo=8, Poisson distribution looks reasonable. # For photo=16, half of the shoots had no roots # Also, photo=8 has very roughly 1/45 as many zeros as photo=8, # so we anticipate prob(zero) is about 1/45=0.22 for photo=8. histogram(~roots|photo, dat, breaks=0:18-0.5, main=\"ridout.appleshoots\")    libs(latticeExtra)   foo.obs <- histogram(~roots|photo*bap, dat, breaks=0:18-0.5, type=\"density\",                        xlab=\"Number of roots for photoperiod 8, 16\",                        ylab=\"Density for BAP levels\",                        main=\"ridout.appleshoots\")   useOuterStrips(foo.obs)    # Ordinary (non-ZIP) Poisson GLM   m1 <- glm(roots ~ bap + photo + bap:photo, data=dat,             family=\"poisson\")   summary(m1) # Appears to have overdispersion   # ----- Fit a Zero-Inflated Poisson model -----  libs(pscl)  # Use SAS contrasts to match SAS output oo <- options(contrasts=c('contr.SAS','contr.poly'))  # There are unequal counts for each trt combination, which obviously affects # the distribution of counts, so use log(trtn) as an offset. dat$ltrtn <- log(dat$trtn)  # Ordinary Poisson GLM: 1 + bap*photo. # Zero inflated probability depends only on photoperiod: 1 + photo  m2 <- zeroinfl(roots ~ 1 + bap*photo | 1 + photo, data=dat,           dist=\"poisson\", offset=ltrtn) logLik(m2)      # -622.2283 matches SAS Output 1 -2 * logLik(m2) # 1244.457 Matches Ridout Table 2, ZIP, H*P, P summary(m2)     # Coefficients match SAS Output 3.  exp(coef(m2, \"zero\")) # Photo=8 has .015 times as many zeros as photo=16  # Get predicted _probabilities_  # Prediction data newdat <- expand.grid(photo=c(8,16), bap=c(2.2, 4.4, 8.8, 17.6)) newdat <- aggregate(trtn~bap+photo, dat, FUN=mean) newdat$ltrtn <- log(newdat$trtn)  # The predicted (Poisson + Zero) probabilities d2 <- cbind(newdat[,c('bap','photo')], predict(m2, newdata=newdat, type=\"prob\")) libs(reshape2) d2 <- melt(d2, id.var = c('bap','photo')) # wide to tall d2$xpos <- as.numeric(as.character(d2$variable)) foo.poi <- xyplot(value~xpos|photo*bap, d2, col=\"black\", pch=20, cex=1.5)  # Plot data and model foo.obs <- update(foo.obs, main=\"ridout.appleshoots: observed (bars) & predicted (dots)\") useOuterStrips(foo.obs + foo.poi)    # Restore contrasts options(oo)  } # }"},{"path":"/reference/robinson.peanut.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of peanuts — robinson.peanut.uniformity","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"Uniformity trial peanuts North Carolina 1939, 1940.","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"","code":"data(\"robinson.peanut.uniformity\")"},{"path":"/reference/robinson.peanut.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"data frame 1152 observations following 4 variables. row row col column yield yield grams/plot year year","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"Two crops peanuts grown North Carolina 1939 1940.   different field used year. block 36 rows 3 feet wide 200 feet long harvested 12.5 foot lengths. Field length: 36 plots * 12.5 feet = 200 feet Field width: 16 plots * 3 feet = 48 feet Widening plot effective increasing plot length   order reduce error. agrees results   uniformity studies. Assuming 30 percent total cost experiment proportional   size plots used, optimum plot size approximately   3.2 units.","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"H.F. Robinson J..Rigney P.H.Harvey (1948).   Investigations Peanut Plot Technique Peanuts.   Univ California Tech. Bul. 86.","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"None","code":""},{"path":"/reference/robinson.peanut.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of peanuts — robinson.peanut.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(robinson.peanut.uniformity)   dat <- robinson.peanut.uniformity    # Mean yield per year. Robinson has 703.9, 787.3   # tapply(dat$yield, dat$year, mean)   #     1939     1940    # 703.7847 787.8125       libs(desplot)   desplot(dat, yield ~ col*row|year,           flip=TRUE, tick=TRUE, aspect=200/48,           main=\"robinson.peanut.uniformity\")    } # }"},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Uniformity trial sugar beets","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"","code":"data(\"roemer.sugarbeet.uniformity\")"},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"data frame 192 observations following 4 variables. row row ordinate col column ordinate yield yield per plot, kg year year experiment","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Roemer p 27: Eigene Versuche mit Zuckerrüben, ausgeführt auf dem Neßthaler   Zuchtfeld des Kaiser-Wilhelm-Institutes, Bromberg, den Jahren 1916,   1917 und 1918. 1916 und 1918 war die Versuchsfläche ein und dieselbe,   6,80 groß und den beiden Jahren mit Original Klein-Wanzlebener   Zuckerrüben auf 30 X 40 cm bebaut. Vorfrucht für 1916 war Hafer, für   1918 Roggen; 1917 war eine andere Fläche, ebenfalls 6,80 groß, für   den Versuch benußt; gesät wurden zwei verschiedene Zuchten von Strube,   Schlanstedt. Beide Flächen sind von sehr gleichmäßiger   Bodenbeschaffenheit. Bei der Fläche 1916 und 1918 machte sich im   ersten Jahre bei den Reihen 31-33 eine geringe Stelle bemerkbar, die   1918 weit weniger Erscheinung trat. Die Bodenunterschiede sind   allen drei Jahren geringer als die durch die Versuchstechnik bedingten   Fehler. Translated: (Roemer) experiments sugar beets, carried   Neßthal breeding field Kaiser Wilhelm Institute, Bromberg,   years 1916, 1917 1918. 1916 1918 test area   one , 6.80 large original years   Klein-Wanzleben sugar beets cultivated 30 x 40 cm. previous   crop 1916 oats, 1918 rye; 1917 another area,   also 6.80 large, used experiment; Two different   varieties Strube, Schlanstedt sown. areas   uniform soil conditions. 1916 1918 area, small spot   noticeable rows 31-33 first year, much less   noticeable 1918. three years soil differences   smaller errors caused experimental technology. Field width: 2 plots * 17 m = 34 m Field length: 48 plots * 4.17 m = 200 m Total area = 34 m * 200 m = 6800 sq m = 6.8 . Cochran says: 96 plots, 1 row x 55.8 ft (17m).   Two sets (years) 1916 1918. Data typed K.Wright Roemer (1920).","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   Table 1, page 62.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180.","code":""},{"path":"/reference/roemer.sugarbeet.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugar beets — roemer.sugarbeet.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(roemer.sugarbeet.uniformity) dat <- roemer.sugarbeet.uniformity  libs(desplot) desplot(dat, yield~col*row|year,         aspect=(48*4.16)/(2*17), flip=TRUE, tick=TRUE,         main=\"roemer.sugarbeet.uniformity\")  } # }"},{"path":"/reference/rothamsted.brussels.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"RCB experiment brussels sprouts, 9 fertilizer treatments","code":""},{"path":"/reference/rothamsted.brussels.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"data frame 48 observations following 5 variables. row row col column yield yield saleable sprouts, pounds trt treatment, 9 levels block block, 4 levels","code":""},{"path":"/reference/rothamsted.brussels.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"block numbers arbitrary, may match orignal source. Plots 10 yards x 14 yards.  Plot orientation clear.","code":""},{"path":"/reference/rothamsted.brussels.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"Rothamsted Experimental Station Report 1934-36.   Brussels sprouts: effect sulphate ammonia, poultry manure, soot   rape dust, pp. 191-192. Harpenden: Lawes Agricultural Trust.","code":""},{"path":"/reference/rothamsted.brussels.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/rothamsted.brussels.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of brussels sprouts, 9 fertilizer treatments — rothamsted.brussels","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(rothamsted.brussels) dat <- rothamsted.brussels  libs(lattice) bwplot(yield~trt, dat, main=\"rothamsted.brussels\")    libs(desplot)   desplot(dat, yield~col*row,           num=trt, out1=block, cex=1, # aspect unknown           main=\"rothamsted.brussels\")  } # }"},{"path":"/reference/rothamsted.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"RCB experiment oats, straw grain, 9 fertilizer treatments","code":""},{"path":"/reference/rothamsted.oats.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"","code":"data(\"rothamsted.oats\")"},{"path":"/reference/rothamsted.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"data frame 96 observations following 6 variables. block block trt fertilizer treatment 9 levels grain grain, pounds per plot straw straw, pounds per plot row row col column","code":""},{"path":"/reference/rothamsted.oats.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"Oats (Grey Winter) grown Rothamsted, Long Hoos field 1926. Values grain straw actual weights pounds. plot 1/40 acre.   plot dimensions given, Rothamsted report shows field square. treatment codes :   OA,OB,OC,OD = top dressing.   E/L = Early/late application.   S/M = Sulphate muriate ammonia.   1/2 = Single double dressing.","code":""},{"path":"/reference/rothamsted.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"Rothamsted Report 1925-26, p. 146.   https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1925-26-138-155   Electronic version data supplied David Clifford.","code":""},{"path":"/reference/rothamsted.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667","code":""},{"path":"/reference/rothamsted.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of oats, straw and grain, 9 fertilizer treatments — rothamsted.oats","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(rothamsted.oats)   dat <- rothamsted.oats       libs(desplot)   desplot(dat, grain~col*row,           out1=block, text=trt, cex=1, shorten=FALSE,           aspect=1,           main=\"rothamsted.oats\")   desplot(dat, straw~col*row,           out1=block, text=trt, cex=1, shorten=FALSE,           aspect=1,           main=\"rothamsted.oats\")       libs(lattice)   xyplot(grain~straw, dat,          main=\"rothamsted.oats\") # traits are correlated     if(0){     # compare to summary at bottom of page 146, first 3 columns     libs(dplyr)     dat = mutate(dat,                  nfert=trt, # number of fertilizer applications                  nfert=dplyr::recode(nfert,                                      \"oa\"=\"None\", \"ob\"=\"None\",                                      \"oc\"=\"None\", \"od\"=\"None\",                                      \"1se\"=\"Single\", \"1sl\"=\"Single\",                                      \"1me\"=\"Single\", \"1ml\"=\"Single\",                                      \"2se\"=\"Double\", \"2sl\"=\"Double\",                                      \"2me\"=\"Double\", \"2ml\"=\"Double\"))     # English ton = 2240 pounds, cwt = 112 pounds     # multiply by 40 to get pounds/acre     # divide by: 112 to get hundredweight/acre, 42 to get bushels/acre     # Avoid pipe operator in Rd examples!     dat <- group_by(dat, nfert)     dat <- summarize(dat, straw=mean(straw), grain=mean(grain))     dat <- mutate(dat, straw= straw * 40/112, grain = grain * 40/42)     ## # A tibble: 3 x 3     ##   nfert  straw grain     ##   <fct>  <dbl> <dbl>     ## 1 Single  50.3  78.9     ## 2 Double  53.7  77.7     ## 3 None    44.1  75.4   }  } # }"},{"path":"/reference/ryder.groundnut.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"RCB experiment groundut, wet dry yields","code":""},{"path":"/reference/ryder.groundnut.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"data frame 24 observations following 6 variables. block block row row col column gen genotype factor wet wet yield, kg/plot dry dry yield, kg/plot","code":""},{"path":"/reference/ryder.groundnut.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"Ryder (1981) uses data discuss importance looking   field plan experiment.  Based analysis residuals,   suggests varieties B block 3 may data   swapped.","code":""},{"path":"/reference/ryder.groundnut.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"K. Ryder (1981). Field plans: biometrician finds useful,   Experimental Agriculture, 17, 243–256. https://doi.org/10.1017/S0014479700011601","code":""},{"path":"/reference/ryder.groundnut.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of groundut, wet and dry yields — ryder.groundnut","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(ryder.groundnut)   dat <- ryder.groundnut    # RCB model   m1 <- lm(dry~block+gen,dat)   dat$res1 <- resid(m1)    # Table 3 of Ryder.  Scale up from kg/plot to kg/ha   round(dat$res1 * 596.6,0)      # Visually.  Note largest positive/negative residuals are adjacent   libs(desplot)   desplot(dat, res1 ~ col + row,           text=gen, # aspect unknown           main=\"ryder.groundnut - residuals\")         libs(desplot)   # Swap the dry yields for two plots and re-analyze   dat[dat$block==\"B3\" & dat$gen==\"A\", \"dry\"] <- 2.8   dat[dat$block==\"B3\" & dat$gen==\"B\", \"dry\"] <- 1.4   m2 <- lm(dry~block+gen, dat)   dat$res2 <- resid(m2)   desplot(dat, res2 ~ col+row,           # aspect unknown           text=gen, main=\"ryder.groundnut\")  } # }"},{"path":"/reference/salmon.bunt.html","id":null,"dir":"Reference","previous_headings":"","what":"Fungus infection in varieties of wheat — salmon.bunt","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"Fungus infection varieties wheat","code":""},{"path":"/reference/salmon.bunt.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"data frame 400 observations following 4 variables. bunt bunt factor, 20 levels pct percent infected rep rep factor, 2 levels gen genotype factor, 10 levels","code":""},{"path":"/reference/salmon.bunt.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"Note: Salmon (1938) gives results 69 types bunt, just   20 shown paper. H. . Rodenhiser C. S. Holton (1937) say races two   different species bunt used, Tilletia tritici T. levis. data gives results 20 types bunt (fungus) winter   wheat varieties Kearneysville, W. Va., 1935. Altogether   69 types bunt included experiment, 20   data representative.  type wheat grown short   row (5 8 feet), seed innoculated   spores bunt.  entire seeding repeated   order. Infection recorded percentage total number heads   counted near harvest.  number counted seldom less 200   sometimes 400 per row.","code":""},{"path":"/reference/salmon.bunt.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"S.C. Salmon, 1938.   Generalized standard errors evaluating bunt experiments wheat.   Agronomy Journal, 30, 647–663.  Table 1.   https://doi.org/10.2134/agronj1938.00021962003000080003x","code":""},{"path":"/reference/salmon.bunt.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"Salmon says data came : H. . Rodenhiser C. S. Holton (1937).   Physiologic races Tilletia tritici T. levis.   Journal Agricultural Research, 55, 483-496.   naldc.nal.usda.gov/download/IND43969050/PDF","code":""},{"path":"/reference/salmon.bunt.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fungus infection in varieties of wheat — salmon.bunt","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(salmon.bunt) dat <- salmon.bunt  d2 <- aggregate(pct~bunt+gen, dat, FUN=mean) # average reps d2$gen <- reorder(d2$gen, d2$pct) d2$bunt <- reorder(d2$bunt, d2$pct) # Some wheat varieties (Hohenheimer) are resistant to all bunts, and some (Hybrid128) # are susceptible to all bunts.  Note the groups of bunt races that are similar, # such as the first 4 rows of this plot.  Also note the strong wheat*bunt interaction. libs(lattice) redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) levelplot(pct~gen+bunt,d2, col.regions=redblue,           main=\"salmon.bunt percent of heads infected\",           xlab=\"Wheat variety\", ylab=\"bunt line\")    # We don't have individual counts, so use beta regression   libs(betareg)   dat$y <- dat$pct/100 + .001 # Beta regression does not allow 0   dat$gen <- reorder(dat$gen, dat$pct) # For a prettier dot plot      m1 <- betareg(y ~ gen + bunt + gen:bunt, data=dat)      # Construct 95 percent confidence intervals   p1 <- cbind(dat,               lo = predict(m1, type='quantile', at=.025),               est = predict(m1, type='quantile', at=.5),               up = predict(m1, type='quantile', at=.975))   p1 <- subset(p1, rep==\"R1\")      # Plot the model intervals over the original data   libs(latticeExtra)   dotplot(bunt~y|gen, data=dat, pch='x', col='red',           main=\"Observed data and 95 pct intervals for bunt infection\") +             segplot(bunt~lo+up|gen, data=p1, centers=est, draw.bands=FALSE)     # To evaluate wheat, we probably want to include bunt as a random effect...  } # }"},{"path":"/reference/saunders.maize.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"Uniformity trial maize South Africa","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"","code":"data(\"saunders.maize.uniformity\")"},{"path":"/reference/saunders.maize.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"data frame 2500 observations following 4 variables. row row ordinate col column ordinate yield yield per plot, pounds year year","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"two maize uniformity trials conducted Potchefstroom   Experiment Station, South Africa. harvested unit plot 10 plants, planted 3 feet 3 feet   individual hills. Dataset 1928-1929 experiment Rows 41-43 missing. Field width: 4 plots * 10 yards = 40 yards Field length : 250 plots * 1 yard = 250 yards Dataset 1929-30 experiment Row 255 missing obvious edge effect first column. Field width: 5 plots * 20 yards = 100 yards Field length: 300 plots * 1 yard = 300 yards Two possible outliers 1929-30 data verified   correctly transcribed source document. data made available special help staff   Rothamsted Research Library. Rothamsted library scanned paper documents pdf. Screen captures   pdf saved jpg files, uploaded OCR conversion   site. resulting text 95 percent accurate   carefully hand-checked formatted csv files.","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5.","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"Rayner & . R. Saunders.   Statistical Methods, Special Reference Field Experiments.","code":""},{"path":"/reference/saunders.maize.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of maize in South Africa — saunders.maize.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(saunders.maize.uniformity)   dat <- saunders.maize.uniformity    libs(desplot)    desplot(dat, yield ~ col*row, subset=year==1929,           flip=TRUE, aspect=250/40,           main=\"saunders.maize.uniformity 1928-29\")   desplot(dat, yield ~ col*row, subset=year==1930,           flip=TRUE, aspect=300/100,           main=\"saunders.maize.uniformity 1929-30\")  } # }"},{"path":"/reference/sawyer.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"Uniformity trials wheat, swedes, oats Rothamsted, England, 1925-1927.","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"","code":"data(\"sawyer.multi.uniformity\")"},{"path":"/reference/sawyer.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"data frame 48 observations following 7 variables. year year crop crop row row col column grain wheat/oats grain weight, pounds straw wheat/oats straw weight, pounds leafwt swedes leaf weight, pounds rootwt swedes root weight, pounds rootct swedes root count","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"experiment conducted Rothamsted, England, 1925-1927,   Sawyers Field. Row 6, column 1 planted year. 1925: Wheat harvested Row 1, column 1 partially missing data wheat values   1925 used Rothamsted summary statistics page 155. 1926: Swedes harvested 1927: Oats harvested Note summaries statistics bottom page report   calibrated ACRES. Field width: 8 plots * 22 feet = 528 feet Field length: 6 plots * 22 feet = 396 feet field 8 plots wide, 6 plots long.  plots drawn   source documents squares .098 acres (1 chain = 66 feet   side). Eden & Maskell (page 165) say field clover, ploughed   autumn 1924. field laid uniformly lands one   chain width plot width made coincide land width   ridge ridge. length plot also one chain   point view yield data trial comprised 47 plots   8x6 except run hedge allowed rank five plots   one ends.","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"Rothamsted Experimental Station, Report 1925-26.   Lawes Agricultural Trust, p. 154-155.   https://www.era.rothamsted.ac.uk/eradoc/book/84 Rothamsted Experimental Station, Report 1927-1928.   Lawes Agricultural Trust, p. 153.   https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1927-28-131-175","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"Eden, T. E. J. Maskell. (1928).   influence soil heterogeneity growth yield   successive crops.   Jour Agricultural Science, 18, 163-185.   https://archive.org/stream/.ernet.dli.2015.25895/2015.25895.Journal--Agricultural-Science-Vol-xviii-1928#page/n175 McCullagh, P. Clifford, D., (2006).   Evidence conformal invariance crop yields,   Proceedings Royal Society : Mathematical, Physical     Engineering Science, 462, 2119–2143.   https://doi.org/10.1098/rspa.2006.1667 Winifred . Mackenzie. (1926)   Note remarkable correlation grain straw, obtained   Rothamsted.   Journal Agricultural Science, 16, 275-279.   https://doi.org/10.1017/S0021859600018256","code":""},{"path":"/reference/sawyer.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of wheat, swedes, oats, 3 years on the same land — sawyer.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(\"sawyer.multi.uniformity\")   dat <- sawyer.multi.uniformity      libs(desplot)   # The field plan shows square plots   desplot(dat, grain~col*row,           subset= year==1925,           main=\"sawyer.multi.uniformity - 1925 wheat grain yield\",           aspect=(6)/(8)) # true aspect      desplot(dat, rootwt~col*row,           subset= year==1926,           main=\"sawyer.multi.uniformity - 1926 root weight of swedes\",           aspect=(6)/(8))    desplot(dat, grain~col*row, subset= year==1927,           main=\"sawyer.multi.uniformity - 1927 oats grain yield\",           aspect=(6)/(8))     # This plot shows the \"outlier\" in the wheat data reported by Mackenzie.   libs(lattice)   xyplot(grain ~ straw, data=subset(dat, year==1925))      round(cor(dat[,7:9], use=\"pair\"),2) # Matches McCullagh p 2121   ##        leafwt rootwt rootct   ## leafwt   1.00   0.66   0.47   ## rootwt   0.66   1.00   0.43   ## rootct   0.47   0.43   1.00      ## pairs(dat[,7:9],   ##       main=\"sawyer.multi.uniformity\")  } # }"},{"path":"/reference/sayer.sugarcane.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"Uniformity trial sugarcane India, 1932, 1933 & 1934.","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"","code":"data(\"sayer.sugarcane.uniformity\")"},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"data frame following 4 variables. row row col column yield yield, pounds/plot year year","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"1932 Experiment, 20 col x 48 row = 960 plots Sayer (1936a, page 685): tonnage Experiment sugarcane, Co. 205,   un-irrigated, conducted Harpur Jhilli 1932; 42 rows cane   space 3 ft rows selected cut sections,   section 30 feet 3 inches long. Thus yield figures   plot sizes 30 feet 3 inches 3 feet (.e. 1/480 acre ),   numbering 840 plots , available statistical   analysis ; convenience data yields first forty rows   also considered separately. Field width: 20 sections x 30 ft 3 = 605 feet Field length: 48 rows x 3 feet = 144 feet Note data Rothamsted library contains 48 rows,   missing values rows 43-48. may Sayer (1963b)   used 42 rows. ———- 1933 Experiment, 8 col x 136 row = 1088 plots Sayer (1936a, page 688). experiment conducted 1933   Meghaul (Monghyr). road cut field, creating blocks   480 ft x 315 ft 480 ft x 93 ft. (See Plate XLI).   136 rows, 3 feet apart, 480 feet long .  required 16   days harvest 1088 plots. plot 1/242 acre. authors   conclude long narrow plots 12/242 16/242 acre   best. Field width: 8 plots * 60 feet = 480 feet Field length: 136 rows * 3 feet = 408 feet ———- 1934 Experiment, 8 col x 121 row = 968 plots experiment conducted New Area, Pusa.  experiment   laid 6 blocks, separated 3-foot bund.    cutting canes began Jan 1934, taking 24 days. (earthquake   15 January delayed harvesting).   Conclusion: Variation reduced increasing plot size   9/242 acre. Field width: 8 plots * 60 feet = 480 feet Field length: 121 rows * 3 feet = 363 feet 1932 data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"1932 Data Rothamsted Research Library, Box STATS17  WG Cochran, Folder 5. 1933 Data Wynne Sayer, M. Vaidyanathan S. Subrammonia Iyer (1936a).   Ideal size shape sugar-cane experimental plots based upon tonnage experiments Co 205 Co 213 conducted Pusa.   Indian J. Agric. Sci., 1936, 6, 684-714. Appendix, page 712.   https://archive.org/details/.ernet.dli.2015.271737 1934 data Wynne Sayer Krishna Iyer.  (1936b).   factors influence error field experiments special reference sugar cane.   Indian J. Agric. Sci., 1936, 6, 917-929. Appendix, page 927.   https://archive.org/details/.ernet.dli.2015.271737","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"None","code":""},{"path":"/reference/sayer.sugarcane.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sugarcane in India, 1932, 1933 & 1934. — sayer.sugarcane.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(sayer.sugarcane.uniformity)   dat32 <- subset(sayer.sugarcane.uniformity, year==1932)   dat33 <- subset(sayer.sugarcane.uniformity, year==1933)   dat34 <- subset(sayer.sugarcane.uniformity, year==1934)    # The 1933 data have a 15-foot road between row 105 & row 106.   # Add 5 to row number of row 106 and above.   dat33$row <- ifelse(dat33$row >= 106, dat33$row + 5, dat33$row)      b1 <- subset(dat33, row<31)   b2 <- subset(dat33, row > 30 & row < 61)   b3 <- subset(dat33, row > 60 & row < 91)   b4 <- subset(dat33, row > 105 & row < 136)   mean(b1$yield) # 340.7 vs Sayer 340.8   mean(b2$yield) # 338.2 vs Sayer 338.6   mean(b3$yield) # 331.3 vs Sayer 330.2   mean(b4$yield) # 295.4 vs Sayer 295.0    mean(dat34$yield) # 270.83 vs Sayer 270.83      libs(desplot)      desplot(dat33, yield ~ col*row,           flip=TRUE, aspect=408/480, # true aspect           main=\"sayer.sugarcane.uniformity 1933\")    desplot(dat34, yield ~ col*row,           flip=TRUE, aspect=363/480, # true aspect           main=\"sayer.sugarcane.uniformity 1934\")    } # }"},{"path":"/reference/senshu.rice.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Response rice solar radiation temperature","code":""},{"path":"/reference/senshu.rice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"data frame 40 observations following 7 variables. country country loc location year year planting, last two digits month month planting rad solar radiation mint minimum temperature yield yield t/ha","code":""},{"path":"/reference/senshu.rice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Minimum temperature average across 30 days post flowering. Opinion: Fitting quadratic model data makes sense.","code":""},{"path":"/reference/senshu.rice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Seshu, D. V. Cady, F. B. 1984.   Response rice solar radiation temperature estimated international yield trials.   Crop Science, 24, 649-654.   https://doi.org/10.2135/cropsci1984.0011183X002400040006x","code":""},{"path":"/reference/senshu.rice.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"Walter W. Piegorsch, . John Bailer. (2005)   Analyzing Environmental Data, Wiley.","code":""},{"path":"/reference/senshu.rice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rice, with solar radiation and temperature — senshu.rice","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)  data(senshu.rice) dat <- senshu.rice  # Model 1 of Senshu & Cady m1 <- lm(yield ~ 1 + rad + mint + I(mint^2), dat) coef(m1)  # Use Fieller to calculate conf int around optimum minimum temp # See: Piegorsch & Bailer, p. 31. # Calculation derived from vegan:::fieller.MOStest m2 <- lm(yield ~ 1 + mint + I(mint^2), dat) b1 <- coef(m2)[2] b2 <- coef(m2)[3] vc <- vcov(m2) sig11 <- vc[2,2] sig12 <- vc[2,3] sig22 <- vc[3,3] u <- -b1/2/b2 tval <- qt(1-.05/2, nrow(dat)-3) gam <- tval^2 * sig22 / b2^2 x <- u + gam * sig12 / (2 * sig22) f <- tval / (-2*b2) sq <- sqrt(sig11 + 4*u*sig12 + 4*u^2*sig22 - gam * (sig11 - sig12^2 / sig22) ) ci <- (x + c(1,-1)*f*sq) / (1-gam) plot(yield ~ mint, dat, xlim=c(17, 32), main=\"senshu.rice: Quadratic fit and Fieller confidence interval\",      xlab=\"Minimum temperature\", ylab=\"Yield\") lines(17:32, predict(m2, new=data.frame(mint=17:32))) abline(v=ci, col=\"blue\") } # }"},{"path":"/reference/shafi.tomato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tomato — shafi.tomato.uniformity","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"Uniformity trial tomato India","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"","code":"data(\"shafi.tomato.uniformity\")"},{"path":"/reference/shafi.tomato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"data frame 200 observations following 3 variables. row row ordinate col column ordinate yield yield, kg/plot","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"experiment conducted Regional Research Station Faculty   Agriculture, SKUAST-K Wadura Campus 2006. original data collected 1m x 1m plots. data   aggregated 2m x 2m plots. Field length: 20 row * 2 m = 40 m Field width: 10 col * 2 m = 20 m","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"Shafi, Sameera (2007).   Aspects Plot Techniques Field Experiments Tomato (Lycopersicon esculentum mill.) Soils Kashmir.   Thesis. Univ. Ag. Sciences & Technology Kashmir. Table 2.2.1.  https://krishikosh.egranth.ac./assets/pdfjs/web/viewer.html?file=https","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"Shafi, Sameera; S..Mir, Nageena Nazir, Anjum Rashid. (2010).   Optimum plot size tomato using S-PLUS R-software's soils Kashmir.   Asian J. Soil Sci., 4, 311-314.   http://researchjournal.co./upload/assignments/4_311-314.pdf","code":""},{"path":"/reference/shafi.tomato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tomato — shafi.tomato.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(shafi.tomato.uniformity)   dat <- shafi.tomato.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           aspect=40/20, # true aspect           main=\"shafi.tomato.uniformity\") } # }"},{"path":"/reference/shafii.rapeseed.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"Rapeseed yield multi-environment trial, 6 genotypes, 3 years, 14 loc, 3 rep","code":""},{"path":"/reference/shafii.rapeseed.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"data frame 648 observations following 5 variables. year year, numeric: 87, 88, 89 loc location, 14 levels rep rep, 3 levels gen genotype, 6 levels yield yield, kg/ha","code":""},{"path":"/reference/shafii.rapeseed.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"data U.S. National Winter Rapeseed trials conducted   1986, 1987, 1988.  Trial locations included Georgia (GGA, TGA),   Idaho (ID), Kansas (KS), Mississippi (MS), Montana (MT), New York   (NY), North Carolina (NC), Oregon (), South Carolina (SC), Tennessee   (TN), Texas (TX), Virginia (VA), Washington (WA). SAS codes analysis can found   https://webpages.uidaho.edu/cals-statprog/ammi/index.html Electronic version :   https://www.uiweb.uidaho.edu/ag/statprog/ammi/yld.data Used permission Bill Price.","code":""},{"path":"/reference/shafii.rapeseed.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"Bahman Shafii William J Price, 1998.   Analysis Genotype--Environment Interaction Using   Additive Main Effects Multiplicative Interaction Model   Stability Estimates.   JABES, 3, 335–345.   https://doi.org/10.2307/1400587","code":""},{"path":"/reference/shafii.rapeseed.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"Matthew Kramer (2018).   Using Posterior Predictive Distribution Diagnostic Tool Mixed Models.   Joint Statistical Meetings 2018, Biometrics Section.   https://www.ars.usda.gov/ARSUserFiles/3122/KramerProceedingsJSM2018.pdf Reyhaneh Bijari Sigurdur Olafsson (2022).   Accounting G×E interactions plant breeding: probabilistic   approach   https://doi.org/10.21203/rs.3.rs-2052233/v1","code":""},{"path":"/reference/shafii.rapeseed.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of rapeseed in U.S. — shafii.rapeseed","text":"","code":"library(agridat) data(shafii.rapeseed) dat <- shafii.rapeseed  dat$gen <- with(dat, reorder(gen, yield, mean)) dat$loc <- with(dat, reorder(loc, yield, mean)) dat$yield <- dat$yield/1000  dat <- transform(dat, rep=factor(rep), year=as.factor(as.character(year))) dat$locyr = paste(dat$loc, dat$year, sep=\"\")  # The 'means' of reps datm <- aggregate(yield~gen+year+loc+locyr, data=dat, FUN=mean) datm <- datm[order(datm$gen),] datm$gen <- as.character(datm$gen) datm$gen <- factor(datm$gen,                        levels=c(\"Bienvenu\",\"Bridger\",\"Cascade\",                          \"Dwarf\",\"Glacier\",\"Jet\")) dat$locyr <- reorder(dat$locyr, dat$yield, mean)  libs(lattice) # This picture tells most of the story dotplot(loc~yield|gen,group=year,data=dat,         auto.key=list(columns=3),         par.settings=list(superpose.symbol=list(pch = c('7','8','9'))),         main=\"shafii.rapeseed\",ylab=\"Location\")    # AMMI biplot.  Remove gen and locyr effects. m1.lm <- lm(yield ~ gen + locyr, data=datm) datm$res <- resid(m1.lm) # Convert to a matrix libs(reshape2) dm <- melt(datm, measure.var='res', id.var=c('gen', 'locyr')) dmat <- acast(dm, gen~locyr) # AMMI biplot.  Figure 1 of Shafii (1998) biplot(prcomp(dmat), main=\"shafii.rapeseed - AMMI biplot\")"},{"path":"/reference/sharma.met.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial — sharma.met","title":"Multi-environment trial — sharma.met","text":"Multi-environment trial","code":""},{"path":"/reference/sharma.met.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial — sharma.met","text":"","code":"data(\"sharma.met\")"},{"path":"/reference/sharma.met.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial — sharma.met","text":"data frame 126 observations following 5 variables. gen genotype loc location year year rep replicate yield yield","code":""},{"path":"/reference/sharma.met.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial — sharma.met","text":"Yield 7 genotypes, 3 years, 2 locations per year, 3 replicates. Might simulated data.","code":""},{"path":"/reference/sharma.met.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial — sharma.met","text":"Jawahar R. Sharma. 1988.   Statistical Biometrical Techniques Plant Breeding.   New Age International Publishers.","code":""},{"path":"/reference/sharma.met.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial — sharma.met","text":"Andrea Onofri, 2020.   Fitting complex mixed models nlme: Example #5.   https://www.statforbiology.com/2020/stat_met_jointreg/","code":""},{"path":"/reference/sharma.met.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial — sharma.met","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(sharma.met)   dat <- sharma.met   dat$env = paste0(dat$year, dat$loc) # Define environment      # Calculate environment index as loc mean - overall mean ---   libs(dplyr)   dat <- group_by(dat, env)   dat <- mutate(dat, eix = mean(yield)-mean(dat$yield))      libs(nlme)   ## Finlay-Wilkinson model plot-level model ---   m1fw <- lme(yield ~ gen/eix - 1,                random = list(env = pdIdent(~ gen - 1),                             env = pdIdent(~ rep - 1)),                data=dat)   summary(m1fw)$tTable # Match Sharma table 9.6   VarCorr(m1fw)      ## Eberhart-Russell plot-level model ---   # Use pdDiag to get variance for each genotype   m1er <- lme(yield ~ gen/eix - 1,                random = list(env = pdDiag(~ gen - 1),                             env = pdIdent(~ rep - 1)),                data=dat)   summary(m1er)$tTable # same as FW   VarCorr(m1er) # genotype variances differ       # Calculate GxE cell means and environment index ---   dat2 <- group_by(dat, gen, env)   dat2 <- summarize(dat2, yield=mean(yield))   dat2 <- group_by(dat2, env)   dat2 <- mutate(dat2, eix=mean(yield)-mean(dat2$yield))      ## Finlay-Wilkinson cell-means model ---   m2fw <- lm(yield ~ gen/eix - 1, data=dat2)   summary(m2fw)      ## Eberhart-Russell cell-means model ---   # Note, using varIdent(form=~1) is same as FW model   m2er <- gls(yield ~ gen/eix - 1,                weights=varIdent(form=~1|gen), data=dat)   summary(m2er)$tTable   sigma <- summary(m2er)$sigma   sigma2i <- (c(1, coef(m2er$modelStruct$varStruct, uncons = FALSE)) * sigma)^2   names(sigma2i)[1] <- \"A\"   sigma2i # shifted from m1er because variation from reps was swept out    } # }"},{"path":"/reference/shaw.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of oats in India — shaw.oats","title":"Multi-environment trial of oats in India — shaw.oats","text":"Multi-environment trial oats India, 13 genotypes, 3 year, 2 loc,   5 reps","code":""},{"path":"/reference/shaw.oats.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of oats in India — shaw.oats","text":"","code":"data(\"shaw.oats\")"},{"path":"/reference/shaw.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of oats in India — shaw.oats","text":"data frame 390 observations following 5 variables. env environment, 2 levels year year, 3 levels block block, 5 levels gen genotype variety, 13 levels yield yield oats, pounds per plot","code":""},{"path":"/reference/shaw.oats.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of oats in India — shaw.oats","text":"oat trial India 11 hybrid oats compared 2 established   high-yielding varieties, labeled L M. trail conducted 2   locations. size exact locations plots varied year   year. Pusa, crop grown without irrigation. Karnal crop   given 2-3 irrigations. Five blocks used, plot 1000 square   feet. 1932, variety L high-yielding Pusa, low-yielding   Karnal. Shaw used data illustrate ANOVA multi-environment trial.","code":""},{"path":"/reference/shaw.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of oats in India — shaw.oats","text":"F.J.F. Shaw (1936).   Handbook Statistics Use Plant Breeding Agricultural Problems.   Imperial Council Agricultural Research, India.   https://archive.org/details/HandbookStatistics1936/page/n12   P. 126","code":""},{"path":"/reference/shaw.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of oats in India — shaw.oats","text":"None","code":""},{"path":"/reference/shaw.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of oats in India — shaw.oats","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(shaw.oats) dat <- shaw.oats # sum(dat$yield) # 16309 matches Shaw p. 125 # sum( (dat$yield-mean(dat$yield)) ^2) # total SS matches Shaw p. 141  dat$year <- factor(dat$year) libs(lattice)  dotplot(yield ~ gen|env, data=dat, groups=year,         main=\"shaw.oats\",         par.settings=list(superpose.symbol=list(pch=c('2','3','4'))),         panel=function(x,y,...){           panel.dotplot(x,y,...)           panel.superpose(x,y,..., panel.groups=function(x,y,col.line,...) {             dd<-aggregate(y~x,data.frame(x,y),mean)             panel.xyplot(x=dd$x, y=dd$y, col=col.line, type=\"l\")           })},         auto.key=TRUE)    # Shaw & Bose meticulously calculate the ANOVA table, p. 141 m1 <- aov(yield ~ year*env*block*gen - year:env:block:gen, dat) anova(m1)  } # }"},{"path":"/reference/siao.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of cotton in China — siao.cotton.uniformity","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"Uniformity trials cotton China","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"","code":"data(\"siao.cotton.uniformity\")"},{"path":"/reference/siao.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"data frame 858 observations following 4 variables. row row ordinate col column ordinate yield yield, catties per mou crop crop trial number","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"1930 test blank test carried Provincial Cotton Station Yuyao,   Chekiang, China. 200 rows, 24 feet long, 1 foot apart,   planted single series. Seed sown drills, thinned 8 inches   plant--plant, 30 plants one row.   Appendix Table , Actual yield 200 rows 1930 test. 1931 test piece land, culture, fertilization previous year.   Yields much lower due  weather.   Appendix Table II, Actual yield 200 rows 1931 test. 1931 test B 24 long ridges cotton. ridge 3 rows 1.2   feet apart (rows 3.6 feet wide).   ridge cut 12 sections 16.66 feet long plants one   foot apart. Siao notes yield border plots lower   inner plots. correlation yield number   plants plot .09.   Appendix Table III, Actual yield 264 rows 1931 test (12 col, 22 row). 1932 test Another 200 rows 24 feet long planted cultural   practice 1930 test. Weather unfavorable.   Appendix Table IV, Actual yield 194 rows 1932 test. \"catty\" 1.33 pounds (Love & Reisner). \"mou\" 1/6 acre (Siao page 12). See also \"Cornell-Nanking Story\" Love & Reisner tangential   information.","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"Siao, Fu.   field plot technic study cotton.   Found :   Harry H. Love papers, 1907-1964.   Box 3, folder 34, Cotton - Plot Technic Study 1930-1932.   https://rmc.library.cornell.edu/EAD/htmldocs/RMA00890.html","code":""},{"path":"/reference/siao.cotton.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of cotton in China — siao.cotton.uniformity","text":"Siao, Fu (1935).   Uniformity trials cotton,   J. Amer. Soc. Agron., 27, 974-979   https://doi.org/10.2134/agronj1935.00021962002700120004x","code":""},{"path":[]},{"path":"/reference/silva.cotton.html","id":null,"dir":"Reference","previous_headings":"","what":"Number of cotton bolls for different levels of defoliation. — silva.cotton","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Number cotton bolls, nodes, plant height, plant weight different levels defoliation.","code":""},{"path":"/reference/silva.cotton.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"","code":"data(\"silva.cotton\")"},{"path":"/reference/silva.cotton.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"data frame 125 observations following 4 variables. stage growth stage defoliation level defoliation, 0, 25, 50, 75, 100 plant plant number rep replicate reproductive number reproductive structures bolls number bolls height plant height nodes number nodes weight weight bolls","code":""},{"path":"/reference/silva.cotton.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Data come greenhouse experiment cotton plants. Completely   randomized design 5 replicates, 2 plants per pot. Artificial defoliation used levels 0, 25, 50, 75, 100 percent. Data collected per plant five growth stages: vegetative,   flower-bud, blossom, fig cotton boll. primary response variable number bolls. data   counts, underdispersed, correlated. Zeviana et al. used data compared Poisson, Gamma-count,   quasi-Poisson GLMs. Bonat & Zeviani used data fit multivariate correlated   generalized linear model. Used permission Walmes Zeviani. Electronic version :   https://www.leg.ufpr.br/~walmes/data/desfolha_algodao.txt","code":""},{"path":"/reference/silva.cotton.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Silva, Anderson Miguel da; Degrande, Paulo Eduardo; Suekane, Renato;   Fernandes, Marcos Gino; & Zeviani, Walmes Marques. (2012).   Impacto de diferentes niveis de desfolha artificial nos estadios fenologicos algodoeiro.   Revista de Ciencias Agrarias, 35(1), 163-172.   https://www.scielo.mec.pt/scielo.php?script=sci_arttext&pid=S0871-018X2012000100016&lng=pt&tlng=pt.","code":""},{"path":"/reference/silva.cotton.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"Zeviani, W. M., Ribeiro, P. J., Bonat, W. H., Shimakura, S. E., Muniz, J. . (2014).   Gamma-count distribution analysis experimental underdispersed data.   Journal Applied Statistics, 41(12), 1-11.   https://doi.org/10.1080/02664763.2014.922168   Online supplement: https://leg.ufpr.br/doku.php/publications:papercompanions:zeviani-jas2014 Regression Models Count Data.   https://cursos.leg.ufpr.br/rmcd/applications.html#cotton-bolls Wagner Hugo Bonat & Walmes Marques Zeviani (2017).   Multivariate Covariance Generalized Linear Models Analysis   Experimental Data.   Short-cource : 62nd RBras 17th SEAGRO meeting/   https://github.com/leg-ufpr/mcglm4aed","code":""},{"path":"/reference/silva.cotton.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Number of cotton bolls for different levels of defoliation. — silva.cotton","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat) data(silva.cotton) dat <- silva.cotton dat$stage <- ordered(dat$stage,                      levels=c(\"vegetative\",\"flowerbud\",\"blossom\",\"boll\",\"bollopen\")) # make stage a numeric factors dat <- transform(dat,                  stage = factor(stage, levels = unique(stage),                                 labels = 1:nlevels(stage)))  # sum data across plants, 1 pot = 2 plants dat <- aggregate(cbind(weight,height,bolls,nodes) ~                     stage+defoliation+rep, data=dat, FUN=sum)    # all traits, plant-level data   libs(latticeExtra)   foo <- xyplot(weight + height + bolls + nodes ~ defoliation | stage,                 data = dat, outer=TRUE,                 xlab=\"Defoliation percent\", ylab=\"\", main=\"silva.cotton\",                 as.table = TRUE, jitter.x = TRUE, type = c(\"p\", \"smooth\"),                 scales = list(y = \"free\"))   combineLimits(useOuterStrips(foo))   if(0){    # poisson glm with quadratic effect for defoliation   m0 <- glm(bolls ~ 1, data=dat, family=poisson)   m1 <- glm(bolls ~ defoliation+I(defoliation^2), data=dat, family=poisson)   m2 <- glm(bolls ~ stage:defoliation+I(defoliation^2), data=dat, family=poisson)   m3 <- glm(bolls ~ stage:(defoliation+I(defoliation^2)), data=dat, family=poisson)   par(mfrow=c(2,2)); plot(m3); layout(1)   anova(m0, m1, m2, m3, test=\"Chisq\")    # predicted values   preddat <- expand.grid(stage=levels(dat$stage),                          defoliation=seq(0,100,length=20))   preddat$pred <- predict(m3, newdata=preddat, type=\"response\")    # Zeviani figure 3   libs(latticeExtra)   xyplot(bolls ~ jitter(defoliation)|stage, dat,          as.table=TRUE,          main=\"silva.cotton - observed and model predictions\",          xlab=\"Defoliation percent\",          ylab=\"Number of bolls\") +     xyplot(pred ~ defoliation|stage, data=preddat,            as.table=TRUE,            type='smooth', col=\"black\", lwd=2) }  if(0){   # ----- mcglm -----   dat <- transform(dat, deffac=factor(defoliation))    libs(car)    vars <- c(\"weight\",\"height\",\"bolls\",\"nodes\")   splom(~dat[vars], data=dat,         groups = stage,         auto.key = list(title = \"Growth stage\",                         cex.title = 1,                         columns = 3),         par.settings = list(superpose.symbol = list(pch = 4)),         as.matrix = TRUE)    splom(~dat[vars], data=dat,         groups = defoliation,         auto.key = list(title = \"Artificial defoliation\",                         cex.title = 1,                         columns = 3),         as.matrix = TRUE)    # multivariate linear model.   m1 <- lm(cbind(weight, height, bolls, nodes) ~ stage * deffac,            data = dat)   anova(m1)    summary.aov(m1)    r0 <- residuals(m1)    # Checking the models assumptions on the residuals.   car::scatterplotMatrix(r0,                          gap = 0, smooth = FALSE, reg.line = FALSE, ellipse = TRUE,                          diagonal = \"qqplot\")    } } # }"},{"path":"/reference/sinclair.clover.html","id":null,"dir":"Reference","previous_headings":"","what":"Clover yields in a factorial fertilizer experiment — sinclair.clover","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"Clover yields factorial fertilizer experiment","code":""},{"path":"/reference/sinclair.clover.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"","code":"data(\"sinclair.clover\")"},{"path":"/reference/sinclair.clover.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"data frame 25 observations following 3 variables. yield yield t/ha P phosphorous fertilizer kg/ha S sulfur fertilizer kg/ha","code":""},{"path":"/reference/sinclair.clover.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"phosphorous sulfur factorial experiment Dipton Southland,   New Zealand.  3 reps.  Plots harvested repeatedly   Dec 1992 Mar 1994.  Yields reported total dry matter across   cuttings.","code":""},{"path":"/reference/sinclair.clover.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"Sinclair AG, Risk WH, Smith LC, Morrison JD & Dodds KG (1994)   Sulphur phosphorus balanced pasture nutrition.   Proc N Z Grass Assoc, 56, 13-16.","code":""},{"path":"/reference/sinclair.clover.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"Dodds, KG Sinclair, AG Morrison, JD. (1995).   bivariate response surface growth data.   Fertilizer research, 45, 117-122.   https://doi.org/10.1007/BF00790661","code":""},{"path":"/reference/sinclair.clover.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Clover yields in a factorial fertilizer experiment — sinclair.clover","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(sinclair.clover) dat <- sinclair.clover  libs(lattice) xyplot(yield~P|factor(S), dat, layout=c(5,1),        main=\"sinclair.clover - Yield by sulfur levels\",        xlab=\"Phosphorous\")  # Dodds fits a two-dimensional Mitscherlich-like model: # z = a*(1+b*{(s+t*x)/(x+1)}^y) * (1+d*{(th+r*y)/(y+1)}^x)  # First, re-scale the problem to a more stable part of the parameter space dat <- transform(dat, x=P/10, y=S/10)  # Response value for (x=0, y=maximal), (x=maximal, y=0), (x=max, y=max) z0m <- 5 zm0 <- 5 zmm <- 10.5 # The parameters are somewhat sensitive to starting values. # I had to try a couple different initial values to match the paper by Dodds m1 <- nls(yield ~ alpha*(1 + beta*{(sig+tau*x)/(x+1)}^y) * (1 + del*{(th+rho*y)/(y+1)}^x),           data=dat, # trace=TRUE,           start=list(alpha=zmm, beta=(zm0/zmm)-1, del=(z0m/zmm)-1,                      sig=.51, tau=.6, th=.5, rho=.7)) summary(m1) # Match Dodds Table 2 ## Parameters: ##       Estimate Std. Error t value Pr(>|t|) ## alpha 11.15148    0.66484  16.773 1.96e-12 *** ## beta  -0.61223    0.03759 -16.286 3.23e-12 *** ## del   -0.48781    0.04046 -12.057 4.68e-10 *** ## sig    0.26783    0.16985   1.577  0.13224 ## tau    0.68030    0.06333  10.741 2.94e-09 *** ## th     0.59656    0.16716   3.569  0.00219 ** ## rho    0.83273    0.06204  13.421 8.16e-11 *** ## --- ## Signif. codes:  0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 ## Residual standard error: 0.5298 on 18 degrees of freedom  pred <- expand.grid(x=0:17, y=0:9) pred$z <- predict(m1, pred)  # 3D plot of data with fitted surface.  Matches Dodds figure 2. libs(rgl) bg3d(color = \"white\") clear3d() spheres3d(dat$x, dat$y, dat$yield,          radius=.2, col = rep(\"navy\", nrow(dat))) surface3d(seq(0, 17, by = 1), seq(0, 9, by = 1), pred$z,           alpha=0.9, col=\"wheat\",           front=\"fill\", back=\"fill\") axes3d() title3d(\"sinclair.clover - yield\",\"\", xlab=\"Phosphorous/10\",         ylab=\"Sulfur/10\", zlab=\"\", line=3, cex=1.5) view3d(userMatrix=matrix(c(.7,.2,-.7,0, -.7,.2,-.6,0, 0,.9,.3,0, 0,0,0,1),ncol=4))   # snapshot3d(file, \"png\")  close3d() } # }"},{"path":"/reference/smith.beans.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"Uniformity trials beans California, 1954-1955, 2 species 2 years","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"","code":"data(\"smith.beans.uniformity\")"},{"path":"/reference/smith.beans.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"data frame 912 observations following 4 variables. expt experiment row row col column yield yield, kg","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"Trials conducted California. 1955 plots twice wide twice long 1954.   Red Kidney bush variety bean, Standard Pink viny variety. Smith randomly assigned ,B,C,D plots used 'varieties'   calculating ANOVA tables.  Plots combined side--side   end--end make larger plots. Decreasing LSDs observed   increases plot sizes.  LSDs seldom 200,   considered noticeable difference farmers. four datasets: —– 1954 Experiment 1: Red Kidney. 1954 Experiment 2: Standard Pink Field width: 18 plots * 30 inches = 45 ft Field length: 12 plots * 15 ft = 180 ft —– 1955 Experiment 3: Red Kidney. 1955 Experiment 4: Standard Pink Field width: 16 plots * 2 rows * 30 = 80 ft Field length: 15 plots * 30 ft = 450 ft","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"Francis L. Smith, 1958.   Effects plot size, plot shape, number replications   efficacy bean yield trials.   Hilgardia, 28, 43-63.   https://doi.org/10.3733/hilg.v28n02p043","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"None.","code":""},{"path":"/reference/smith.beans.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of beans, 2 species in 2 years — smith.beans.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(smith.beans.uniformity)   dat1 <- subset(smith.beans.uniformity, expt==\"E1\")   dat2 <- subset(smith.beans.uniformity, expt==\"E2\")   dat3 <- subset(smith.beans.uniformity, expt==\"E3\")   dat4 <- subset(smith.beans.uniformity, expt==\"E4\")    cv <- function(x) { sd(x)/mean(x) }   cv(dat1$yield)   cv(dat2$yield) # Does not match Smith. Checked all values by hand.   cv(dat3$yield)   cv(dat4$yield)    libs(\"desplot\")   desplot(dat1, yield ~ col*row,           aspect=180/45, flip=TRUE, # true aspect           main=\"smith.beans.uniformity, expt 1 (true aspect)\")    desplot(dat2, yield ~ col*row,           aspect=180/45, flip=TRUE, # true aspect           main=\"smith.beans.uniformity, expt 2 (true aspect)\")    desplot(dat3, yield ~ col*row,           aspect=450/80, flip=TRUE, # true aspect           main=\"smith.beans.uniformity, expt 3 (true aspect)\")    desplot(dat4, yield ~ col*row,           aspect=450/80, flip=TRUE, # true aspect           main=\"smith.beans.uniformity expt 4, (true aspect)\")    } # }"},{"path":"/reference/smith.corn.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"Uniformity trial corn, 3 years ground, 1895-1897, Illinois.","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"data frame 360 observations following 5 variables. row row col column plot plot number, consistent across years year year. Last two digits 1895, 1896, 1897 yield yield, bushels / acre","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"Data come Illinois Experiment Station. data values Smith (1910) field map Harris (1920).   plot 1/10 acre, dimensions given. Note   1/10 acre also area square 1 chain (66 feet) side. following text abridged Smith (1910). much variability may reasonably expect land   apparently uniform? data among records soil plots   Illinois Experiment station furnish interesting material study   connection. field lain sixteen years pasture broken 1895   laid plots subsequently used soil   experiments. land slightly rolling otherwise quite uniform   appearance. series considered   connection 120 one-tenth acre plots. plots planted   corn three consecutive years without soil treatment,   records offer rather exceptional opportunity study   kind. study data reveals striking variations.   noticed first place tremendous difference   production different years. first year, 1895,   extremely unfavorable one corn yields exceptionally   low. weather records show season unusually   dry, also cool early part. following year   exceptionally favorable corn season, yields run unusually   high. third year also good one, yields perhaps   somewhat normal locality. observed certain plots appear   abnormal. Thus plots 117, 118, 119, 120 give abnormally high   yield first season abnormally low one two   following years. accounted topography   land. plots lie low spot favorable dry   year 1895, unfavorable 1896 1897. reason   four plots rejected consideration study,   also plots 616, 617, 618, 619, 620. leaves 111 plots   whose variations apparently unaccounted furnish   data following results taken. noticeable variability measured standard   deviation becomes less succeeding year. suggests   question whether continued cropping might tend induce   uniformity. records plots continued   corn three years longer, however, support   conclusion. seems reasonable expect greater variability seasons   unfavorable production, 1895, much may   depend upon certain critical factors production coming play   suggestion may explanation high standard   deviation first year. Results extending longer series   years extremely interesting connection. consider total range variation single year,   find differences follows: Plots lying adjoining shown   following maximum variations: 18 bushels 1895; 11 bushels 1896;   8 bushels 1897. results give us conception unaccountable plot   variations deal field tests. possibility   remains still closer study might detect abnormal factors   play account variations certain cases,   study certainly suggests importance conservatism arriving   conclusions based upon plot tests. particular value writer derived study   strengthening conviction dependence   placed upon variety tests field experiments records   involving average liberal numbers extending long   periods time.","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"Smith, L.H. 1910.   Plot arrangement variety experiments corn.   Agronomy Journal, 1, 84–89. Table 1.   https://books.google.com/books?id=mQT0AAAAMAAJ&pg=PA84 Harris, J.. 1920.   Practical universality field heterogeneity factor   influencing plot yields.   Journal Agricultural Research, 19, 279–314. Page 296-297.   https://books.google.com/books?id=jyEXAAAAYAAJ&pg=PA279","code":""},{"path":"/reference/smith.corn.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of corn, 3 years on same ground — smith.corn.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(smith.corn.uniformity)   dat <- smith.corn.uniformity    dat = transform(dat, year=factor(year))   libs(desplot)   desplot(dat, yield~col*row|year,           layout=c(2,2), aspect=1,           main=\"smith.corn.uniformity: yield across years 1895-1987\")    ## # Outliers are obvious   ## libs(lattice)   ## xyplot(yield~row|factor(col), dat, groups=year,   ##        auto.key=list(columns=3), main=\"smith.corn.uniformity\")    libs(rgl)   # A few odd pairs of outliers in column 6   # black/gray dots very close to each other   plot3d(dat$col, dat$row, dat$yield, col=dat$year,          xlab=\"col\",ylab=\"row\",zlab=\"yield\")   close3d()    } # }"},{"path":"/reference/smith.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — smith.wheat.uniformity","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"Uniformity trial wheat Australia.","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"","code":"data(\"smith.wheat.uniformity\")"},{"path":"/reference/smith.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"data frame 1080 observations following 4 variables. row row ordinate col column ordinate yield grain yield per plot, grams ears number ears per plot","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"Experiment grown Canberra, Australia, 1934. data yield grain per plot number \"ears\".   plot 1 foot long 0.5 foot. Field width: 36 columns x 1 foot = 36 feet. Field length: 30 rows x 0.5 foot = 15 feet. Notes: 2 copies yield data Rothamsted library.   Let Copy one dark, hand-drawn grid lines, Copy B   one without hand-drawn grid lines. copies hand-written,   likely copied original data. row 4 (top) column 34: Copy yield 164 Copy B   yield 154. value 154 appears correct, since leads   row column totals shown Copy Copy B. row 20, column 28, Copy Copy B show yield 283.   appears copy error. replaced value 283 203,   row column totals match values Copy Copy B,   also variance data matches value Smith (1938),   2201 page 7. documents Rothamsted claim grain yield shown   \"Yields grain decigrams per foot length\".  However, believe   actual unit weight grams. Note yield values   high-yielding parts field close 200 g per plot,   plot 0.5 sq feet.  Multiply 8 get 1600 g per 4 sq   feet. Smith's paper, fertility contour map figure 1 shows   high-yielding part field yield close   \"16 d.kg per 4 sq ft\", 16 d.kg = 16 kg = 1600 g. data made available special help staff   Rothamsted Research Library.","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"Rothamsted Research Library, Box STATS17  WG Cochran, Folder 7.","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"H. Fairfield Smith (1938).   empirical law describing heterogeneity yields   agricultural crops.   Journal Agricultural Science, volume 28, Issue 1, January   1938, pp. 1 - 23.   https://doi.org/10.1017/S0021859600050516 Peter McCullagh & David Clifford. (2006).   Evidence conformal invariance crop yields.   Proc. R. Soc. (2006) 462, 2119–2143   http://www.stat.uchicago.edu/~pmcc/reml/   https://doi.org/:10.1098/rspa.2006.1667","code":""},{"path":"/reference/smith.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — smith.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(smith.wheat.uniformity)   dat <- smith.wheat.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"smith.wheat.uniformity\",           flip=TRUE, aspect=15/30)    xyplot(yield ~ ears, data=dat)    libs(agricolae,reshape2)    # Compare to Smith Fig. 2   m1 <- index.smith(acast(dat, row~col, value.var='yield'),                     main=\"smith.wheat.uniformity\",                     col=\"red\")$uni   m1 # Compare to Smith table I    } # }"},{"path":"/reference/snedecor.asparagus.html","id":null,"dir":"Reference","previous_headings":"","what":"Asparagus yields for different cutting treatments — snedecor.asparagus","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Asparagus yields different cutting treatments, 4 years.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"data frame 64 observations following 4 variables. block block factor, 4 levels year year, numeric trt treatment factor final cutting date yield yield, ounces","code":""},{"path":"/reference/snedecor.asparagus.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Planted 1927.  Cutting began 1929.  Yield weight   asparagus cuttings Jun 1 plot.  plots received continued   cuttings Jun 15, Jul 1, Jul 15. past, repeated-measurement experiments like sometimes   analyzed split-plot experiment.  violates   indpendence assumptions.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Snedecor Cochran, 1989. Statistical Methods.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"Mick O'Neill, 2010.   Guide Linear Mixed Models Experimental Design Context.   Statistical Advisory & Training Service Pty Ltd.","code":""},{"path":"/reference/snedecor.asparagus.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Asparagus yields for different cutting treatments — snedecor.asparagus","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(snedecor.asparagus)   dat <- snedecor.asparagus    dat <- transform(dat, year=factor(year))   dat$trt <- factor(dat$trt,                     levels=c(\"Jun-01\", \"Jun-15\", \"Jul-01\", \"Jul-15\"))    # Continued cutting reduces plant vigor and yield   libs(lattice)   dotplot(yield ~ trt|year, data=dat,           xlab=\"Cutting treatment\", main=\"snedecor.asparagus\")    # Split-plot   if(0){     libs(lme4)     m1 <- lmer(yield ~ trt + year + trt:year +                  (1|block) + (1|block:trt), data=dat)   }    # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)      # Split-plot with asreml     m2 <- asreml(yield ~ trt + year + trt:year, data=dat,                  random = ~ block + block:trt)     lucid::vc(m2)     ##    effect component std.error z.ratio bound      ##     block     354.3     405      0.87     P 0.1     ## block:trt     462.8     256.9    1.8      P 0       ##   units!R     404.7      82.6    4.9      P 0            ## # Antedependence with asreml.  See O'Neill (2010).     dat <- dat[order(dat$block, dat$trt), ]     m3 <- asreml(yield ~ year * trt, data=dat,                  random = ~ block,                  residual = ~ block:trt:ante(year,1),                  max=50)     m3 <- update(m3)     m3 <- update(m3)      ## # Extract the covariance matrix for years and convert to correlation     ## covmat <- diag(4)     ## covmat[upper.tri(covmat,diag=TRUE)] <- m3$R.param$`block:trt:year`$year$initial     ## covmat[lower.tri(covmat)] <- t(covmat)[lower.tri(covmat)]     ## round(cov2cor(covmat),2) # correlation among the 4 years     ## #      [,1] [,2] [,3] [,4]     ## # [1,] 1.00 0.45 0.39 0.31     ## # [2,] 0.45 1.00 0.86 0.69     ## # [3,] 0.39 0.86 1.00 0.80     ## # [4,] 0.31 0.69 0.80 1.00          ## # We can also build the covariance Sigma by hand from the estimated     ## # variance components via: Sigma^-1 = U D^-1 U'     ## vv <- vc(m3)     ## print(vv)     ## ##            effect component std.error z.ratio constr     ## ##   block!block.var  86.56    156.9        0.55    pos     ## ##        R!variance   1              NA      NA    fix     ## ##  R!year.1930:1930   0.00233   0.00106    2.2   uncon     ## ##  R!year.1931:1930  -0.7169    0.4528    -1.6   uncon     ## ##  R!year.1931:1931   0.00116   0.00048    2.4   uncon     ## ##  R!year.1932:1931  -1.139     0.1962    -5.8   uncon     ## ##  R!year.1932:1932   0.00208   0.00085    2.4   uncon     ## ##  R!year.1933:1932  -0.6782    0.1555    -4.4   uncon     ## ##  R!year.1933:1933   0.00201   0.00083    2.4   uncon          ## U <- diag(4)     ## U[1,2] <- vv[4,2] ; U[2,3] <- vv[6,2] ; U[3,4] <- vv[8,2]     ## Dinv <- diag(c(vv[3,2], vv[5,2], vv[7,2], vv[9,2]))     ## # solve(U      ## solve(crossprod(t(U), tcrossprod(Dinv, U)) )     ## ##          [,1]      [,2]      [,3]      [,4]     ## ## [1,] 428.4310  307.1478  349.8152  237.2453     ## ## [2,] 307.1478 1083.9717 1234.5516  837.2751     ## ## [3,] 349.8152 1234.5516 1886.5150 1279.4378     ## ## [4,] 237.2453  837.2751 1279.4378 1364.8446   }    } # }"},{"path":"/reference/snijders.fusarium.html","id":null,"dir":"Reference","previous_headings":"","what":"Fusarium infection in wheat varieties — snijders.fusarium","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"Infection wheat different strains Fusarium.","code":""},{"path":"/reference/snijders.fusarium.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"data frame 204 observations following 4 variables. gen wheat genotype strain fusarium strain year year y percent infected","code":""},{"path":"/reference/snijders.fusarium.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"data percent leaf area affected Fusarium head blight,   averaged 4-5 reps, 17 winter wheat genotypes. Van Eeuwijk fit generalized ammi-2 model data.    generalized model sense link function used,   non-linear AMMI model main effects variety   year-strain, additional multiplicative effects   interactions. Note, value strain F348 1988, gen SVP75059-32   28.3 (shown VanEeuwijk 1995) 38.3 (shown Snijders   1991). Used permission Fred van Eeuwijk.","code":""},{"path":"/reference/snijders.fusarium.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"Snijders, CHA Van Eeuwijk, FA. 1991.   Genotype x strain interactions resistance Fusarium head blight   caused Fusarium culmorum winter wheat.   Theoretical Applied Genetics, 81, 239–244. Table 1.   https://doi.org/10.1007/BF00215729","code":""},{"path":"/reference/snijders.fusarium.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"Fred van Eeuwijk. 1995.   Multiplicative interaction generalized linear models.   Biometrics, 51, 1017-1032.   https://doi.org/10.2307/2533001","code":""},{"path":"/reference/snijders.fusarium.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Fusarium infection in wheat varieties — snijders.fusarium","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(snijders.fusarium) dat <- snijders.fusarium  aggregate(y ~ strain + year, dat, FUN=mean) # Match means in Snijders table 1  dat <- transform(dat, y=y/100, year=factor(year), yrstr=factor(paste0(year,\"-\",strain)))  # Strain F329 shows little variation across years. F39 shows a lot. libs(lattice) dotplot(gen~y|strain, data=dat, group=year,         main=\"snijders.fusarium : infection by strain\",         xlab=\"Fraction infected\", ylab=\"variety\",         auto.key=list(columns=3))  # Logit transform dat <- transform(dat, logit=log(y/(1-y))) m1 <- aov(logit ~ yrstr + gen, data=dat) # Match SS in VanEeuwijk table 4 anova(m1)  # Match SS in VanEeuwijk table 4 m2 <- aov(logit ~ year*strain + gen + gen:year + gen:strain, data=dat) anova(m2) # Match to VanEeuwijk table 5  # GLM on untransformed data using logit link, variance mu^2(1-mu)^2 libs(gnm) # for 'wedderburn' family m2 <- glm(y ~ yrstr + gen, data=dat, family=\"wedderburn\") anova(m2) # Main effects match VanEeuwijk table 6  # Generalized AMMI-2 model. Matches VanEeuwijk table 6 bilin2 <- gnm(y ~ yrstr + gen + instances(Mult(yrstr, gen), 2),               data=dat, family = wedderburn) # plot(bilin2,1) # Resid vs fitted plot matches VanEeuwijk figure 3c ## anova(bilin2) ##                            Df Deviance Resid. Df Resid. Dev ## NULL                                         203     369.44 ## yrstr                      11  150.847       192     218.60 ## gen                        16  145.266       176      73.33 ## Mult(yrstr, gen, inst = 1) 26   26.128       150      47.20 ## Mult(yrstr, gen, inst = 2) 24   19.485       126      27.72  # Manually extract coordinates for biplot cof <- coef(bilin2) y1 <- cof[29:40] g1 <- cof[41:57] y2 <- cof[58:69] g2 <- cof[70:86] g12 <- cbind(g1,g2) rownames(g12) <- substring(rownames(g12), 29) y12 <- cbind(y1,y2) rownames(y12) <- substring(rownames(y12), 31) g12[,1] <- -1 * g12[,1] y12[,1] <- -1 * y12[,1] # GAMMI biplot.  Inner-products of points projected onto # arrows match VanEeuwijk figure 4.  Slight rotation of graph is ignorable. biplot(y12, g12, cex=.75, main=\"snijders.fusarium\") # Arrows to genotypes.  } # }"},{"path":"/reference/stephens.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"Uniformity trial sorghum silage Chillicothe, Texas, 1915.","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"data frame 2000 observations following 3 variables. row row col column / rod yield yield, ounces","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"Grown near Chillicothe, TX 1915.  Rows 40 inches apart.   row harvested 1-rod (16.5 ft) lengths.   East side higher yielding west side.   Yields weight (ounces) green forage rod-row.   Total area harvested: 100*40/12 = 333.33 feet 20*16.5=330 feet. Field width: 20 plots * 16.5 ft (1 rod) = 330 feet. Field length: 100 plots * 40 = 333 feet","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"Stephens, Joseph C. 1928.   Experimental methods probable error field experiments sorghum.   Journal Agricultural Research, 37, 629–646.   https://naldc.nal.usda.gov/catalog/IND43967516","code":""},{"path":"/reference/stephens.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum silage — stephens.sorghum.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)      data(stephens.sorghum.uniformity)   dat <- stephens.sorghum.uniformity    dat <- subset(dat, row>2 & row<99) # omit outer two rows   # mean(dat$yield) # 180.27   # range(dat$yield) # 75,302 matches Stephens      # densityplot(~dat$yield) # Stephens figure 3      # Aggregate 4 side-by-side rows.   d4 <- dat   d4$row2 <- ceiling((d4$row-2)/4)   d4 <- aggregate(yield ~ row2+col, data=d4, FUN=sum)   d4$row2 <- 25-d4$row2 # flip horizontally      libs(desplot)   grays <- colorRampPalette(c(\"#d9d9d9\",\"#252525\"))   desplot(d4, yield ~ row2*col,           aspect=333/330, flip=TRUE, # true aspect           main=\"stephens.sorghum.uniformity\",           col.regions=grays(3),           at=c(500,680,780,1000))   # Similar to Stephens Figure 7.  North at top.  East at right.    } # }"},{"path":"/reference/steptoe.morex.pheno.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"Phenotypic genotypic data barley population Steptoe x     Morex.  150 doubled haploid crosses, evaluated 223     markers.  Phenotypic data wascollected 8 traits 16 environments.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"","code":"data(\"steptoe.morex.pheno\")"},{"path":"/reference/steptoe.morex.pheno.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"steptoe.morex.pheno data.frame phenotypic data   2432 observations 10 variables: gen genotype factor parents Steptoe Morex,       150 crosses SM1, SM2, ..., SM200. 200 numbers used. env environment, 16 levels amylase alpha amylase (20 Deg Units) diapow diastatic power (degree units) hddate heading date (julian days) lodging lodging (percent) malt malt extract (percent) height plant height (centimeters) protein grain protein (percent) yield grain yield (Mt/Ha) steptoe.morex.geno cross object   qtl package genotypic data 223   markers 150 crosses Steptoe x Morex.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"described Hayes et al (1993), population 150 barley doubled   haploid (DH) lines developed Oregon State University Barley   Breeding Program North American Barley Genome Mapping   Project. parentage population Steptoe / Morex. Steptoe dominant feed barley northwestern U.S. Morex spring U.S. malting quality standard. Seed single head parent used create F1,   set 150 lines developed. Phenotypic values parents Steptoe Morex :   https://wheat.pw.usda.gov/ggpages/SxM/parental_values.html 16 locations, average across locations column 17.    traits collected every location.  location, 150 lines   included block 1, random subset 50 lines used block 2. traits :   Alpha Amylase (20 Deg Units),   Diastatic Power (Deg Units),   Heading Date (Julian Days),   Lodging (percent),   Malt Extract (percent),   Grain Protein (percent),   Grain Yield (Mt/Ha). Phenotypic values 150 lines F1 population :   https://wheat.pw.usda.gov/ggpages/SxM/phenotypes.html trait different file, block numbers   represents one location. 223-markers Steptoe/Morex base map :   https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.map data markers 150 lines   https://wheat.pw.usda.gov/ggpages/SxM/smbasev2.mrk hand-assembled (e.g. marker distances cumulated   marker positions) .csv file imported   R using qtl::read.cross.  class manually changed   c('bc','cross') c('dh','cross'). marker data coded = Steptoe, B = Morex, - = missing. pedigrees 150 lines found :   https://wheat.pw.usda.gov/ggpages/SxM/pedigrees.html Data provided United States Department Agriculture.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"Steptoe x Morex Barley Mapping Population.   Map: Version 2, August 1, 1995   https://wheat.pw.usda.gov/ggpages/SxM.  Accessed Jan 2015.","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"P.M. Hayes, B.H. Liu, S.J. Knapp, F. Chen, B. Jones, T. Blake,   J. Franckowiak, D. Rasmusson, M. Sorrells, S.E. Ullrich, others. 1993.   Quantitative trait locus effects environmental interaction sample   North American barley germplasm.   Theoretical Applied Genetics, 87, 392–401.   https://doi.org/10.1007/BF01184929 Ignacio Romagosa, Steven E. Ullrich, Feng Han, Patrick M. Hayes. 1996.   Use additive main effects multiplicative interaction model   QTL mapping adaptation barley.   Theor Appl Genet, 93, 30-37.   https://doi.org/10.1007/BF00225723 Piepho, Hans-Peter. 2000.   mixed-model approach mapping quantitative trait loci barley   basis multiple environment data.   Genetics, 156, 2043-2050. M. Malosetti, J. Voltas, . Romagosa, S.E. Ullrich, F.. van Eeuwijk. (2004).   Mixed models including environmental covariables studying QTL   environment interaction.   Euphytica, 137, 139-145.   https://doi.org/10.1023/B:EUPH.0000040511.4638","code":""},{"path":"/reference/steptoe.morex.pheno.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley, phenotypic and genotypic data for a population of Steptoe x Morex — steptoe.morex.pheno","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(steptoe.morex.pheno)   dat <- steptoe.morex.pheno    # Visualize GxE of traits   libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   levelplot(amylase~env*gen, data=dat, col.regions=redblue,             scales=list(x=list(rot=90)), main=\"amylase\")   ## levelplot(diapow~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"diapow\")   ## levelplot(hddate~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"hddate\")   ## levelplot(lodging~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"lodging\")   ## levelplot(malt~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"malt\")   ## levelplot(height~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"height\")   ## levelplot(protein~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"protein\")   ## levelplot(yield~env*gen, data=dat, col.regions=redblue,   ##           scales=list(x=list(rot=90)), main=\"yield\")     # Calculate avg yield for each loc as in Romagosa 1996, table 3   # t(t(round(tapply(dat$yield, dat$env, FUN=mean),2)))   # SKo92,SKg92 means in table 3 are switched.  Who is right, him or me?    # Draw marker map   libs(qtl)   data(steptoe.morex.geno)   datg <- steptoe.morex.geno   qtl::plot.map(datg, main=\"steptoe.morex.geno\")   qtl::plotMissing(datg)         # This is a very rudimentary example.   # The 'wgaim' function works interactively, but fails during   # devtools::check().   if(0 & require(\"asreml\", quietly=TRUE)){     libs(asreml)      # Fit a simple multi-environment mixed model     m1 <- asreml(yield ~ env, data=dat, random=~gen)        libs(wgaim)     wgaim::linkMap(datg)     # Create an interval object for wgaim     dati <- wgaim::cross2int(datg, id=\"gen\")          # Whole genome qtl     q1 <- wgaim::wgaim(m1, intervalObj=dati,                        merge.by=\"gen\", na.action=na.method(x=\"include\"))     #wgaim::linkMap(q1, dati) # Visualize     wgaim::outStat(q1, dati) # outlier statistic     summary(q1, dati)  # Table of important intervals     # Chrom Left Marker dist(cM) Right Marker dist(cM)   Size Pvalue      #     3      ABG399     52.6       BCD828     56.1  0.254  0.000  45.0     #     5      MWG912      148      ABG387A    151.2  0.092  0.001   5.9     #     6     ABC169B     64.8       CDO497     67.5 -0.089  0.001   5.6   }    } # }"},{"path":"/reference/stickler.sorghum.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of sorghum — stickler.sorghum.uniformity","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"Uniformity trial sorghum Manhattan, Kansas, 1958-1959.","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"","code":"data(\"stickler.sorghum.uniformity\")"},{"path":"/reference/stickler.sorghum.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"data frame 1600 observations following 4 variables. expt experiment row row col col yield yield, pounds","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"Four sorghum experiments Agronomy Farm Manhattan,   Kansas. Experiments E1,E2 grown 1958. Expts E3,E5 grown 1959. Experiment E1. Field width = 20 units * 14 inches = 23.3 ft. Field length = 20 units * 10 feet = 200 feet. Experiment E2-E3. Field width = 20 units * 40 inches = 73 feet Field length = 20 units * 5 ft = 100 feet.","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"F. C. Stickler (1960).   Estimates Optimum Plot Size Grain Sorghum Uniformity Trial Data.   Technical bulletin, Kansas Agricultural Experiment Station, page 17-20.   https://babel.hathitrust.org/cgi/pt?id=uiug.30112019584322&view=1up&seq=21","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"None.","code":""},{"path":"/reference/stickler.sorghum.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of sorghum — stickler.sorghum.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(stickler.sorghum.uniformity)   dat <- stickler.sorghum.uniformity      dat1 <- subset(dat, expt==\"E1\")   dat2 <- subset(dat, expt!=\"E1\")      libs(desplot)   desplot(dat, yield ~ col*row|expt,           subset=expt==\"E1\",           #cex=1,text=yield, shorten=\"none\",           xlab=\"row\",ylab=\"range\",           flip=TRUE, tick=TRUE, aspect=(20*10)/(20*14/12), # true aspect           main=\"stickler.sorghum.uniformity: expt E1\")    desplot(dat, yield ~ col*row|expt,           subset=expt!=\"E1\",           xlab=\"row\",ylab=\"range\",           flip=TRUE, tick=TRUE, aspect=(20*5)/(20*44/12), # true aspect           main=\"stickler.sorghum.uniformity: expt E2,E3,E4\")    # Stickler, p. 10-11 has   #    E1    E2    E3    E4   # 34.81 11.53 11.97 14.10    cv <- function(x) 100*sd(x)/mean(x)   tapply(dat$yield, dat$expt, cv)   # 35.74653 11.55062 11.97011 14.11389    } # }"},{"path":"/reference/stirret.borers.html","id":null,"dir":"Reference","previous_headings":"","what":"Corn borer control by application of fungal spores. — stirret.borers","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"Corn borer control application fungal spores.","code":""},{"path":"/reference/stirret.borers.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"data frame 60 observations following 4 variables. block block, 15 levels trt treatment, 4 levels count1 count borers August 18 count2 count borers October 19","code":""},{"path":"/reference/stirret.borers.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"Experiment conducted 1935, Ottawa.  European corn borer infestation   established application egg masses plants.   Treatments applied July 8 July 19 two levels, 0 40   grams per acre.  number borers per plot counted   Aug 18 Oct 19.","code":""},{"path":"/reference/stirret.borers.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"Stirrett, George M Beall, Geoffrey Timonin, M. (1937).   field experiment control European corn borer, Pyrausta   nubilalis Hubn, Beauveria bassiana Vuill.   Sci. Agric., 17, 587–591.  Table 2.","code":""},{"path":"/reference/stirret.borers.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Corn borer control by application of fungal spores. — stirret.borers","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(stirret.borers)   dat <- stirret.borers    libs(lattice)   xyplot(count2~count1|trt,dat,          main=\"stirret.borers - by treatment\",          xlab=\"Early count of borers\", ylab=\"Late count\")      # Even though the data are counts, Normal distribution seems okay   # qqmath(~count1|trt, dat, main=\"stirret.borers\")      m1 <- lm(count1 ~ -1 + trt + block, dat)   anova(m1)   # predicted means = main effect + average of 15 block effects   # note block 1 effect is 0   # coef(m1)[1:4] + sum(coef(m1)[-c(1:4)])/15   ##  trtBoth trtEarly  trtLate  trtNone    ## 47.86667 62.93333 40.93333 61.13333     } # }"},{"path":"/reference/streibig.competition.html","id":null,"dir":"Reference","previous_headings":"","what":"Competition experiment between barley and sinapis. — streibig.competition","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"Competition experiment barley sinapis, different   planting rates.","code":""},{"path":"/reference/streibig.competition.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"data frame 135 observations following 8 variables. pot pot number bseeds barley seeds sown sseeds sinapis seeds sown block block bfwt barley fresh weight sfwt sinapis fresh weight bdwt barley dry weight sdwt sinapis dry weight","code":""},{"path":"/reference/streibig.competition.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"source data (McCullagh) also contains count plants   harvested (included ) sometimes greater   number seeds planted. Used permission Jens Streibig.","code":""},{"path":"/reference/streibig.competition.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"Peter McCullagh, John . Nelder.   Generalized Linear Models, page 318-320.","code":""},{"path":"/reference/streibig.competition.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"Oliver Schabenberger Francis J Pierce. 2002.   Contemporary Statistical Models Plant Soil Sciences.   CRC Press.  Page 370-375.","code":""},{"path":"/reference/streibig.competition.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Competition experiment between barley and sinapis. — streibig.competition","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)  data(streibig.competition) dat <- streibig.competition  # See Schaberger and Pierce, pages 370+ # Consider only the mono-species barley data (no competition from sinapis) d1 <- subset(dat, sseeds<1) d1 <- transform(d1, x=bseeds, y=bdwt, block=factor(block))  # Inverse yield looks like it will be a good fit for Gamma's inverse link libs(lattice) xyplot(1/y~x, data=d1, group=block, auto.key=list(columns=3),        xlab=\"Seeding rate\", ylab=\"Inverse yield of barley dry weight\",        main=\"streibig.competition\")  # linear predictor is quadratic, with separate intercept and slope per block m1 <- glm(y ~ block + block:x + x+I(x^2), data=d1,           family=Gamma(link=\"inverse\")) # Predict and plot newdf <- expand.grid(x=seq(0,120,length=50), block=factor(c('B1','B2','B3')) ) newdf$pred <- predict(m1, new=newdf, type='response') plot(y~x, data=d1, col=block, main=\"streibig.competition - by block\",      xlab=\"Barley seeds\", ylab=\"Barley dry weight\") for(bb in 1:3){   newbb <- subset(newdf, block==c('B1','B2','B3')[bb])   lines(pred~x, data=newbb, col=bb) }  } # }"},{"path":"/reference/strickland.apple.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial in apple — strickland.apple.uniformity","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"Uniformity trial apple Australia","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"","code":"data(\"strickland.apple.uniformity\")"},{"path":"/reference/strickland.apple.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"data frame 198 observations following 3 variables. row row col column yield yield per tree, pounds","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"recently re-worked trees removed data. distance trees uncertain, likely range 20-30   feet.","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial in apple — strickland.apple.uniformity","text":". G. Strickland (1935).   Error horticultural experiments.   Journal Agriculture, Victoria, 33, 408-416.   https://handle.slv.vic.gov.au/10381/386642","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"None","code":""},{"path":"/reference/strickland.apple.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial in apple — strickland.apple.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(strickland.apple.uniformity)   dat <- strickland.apple.uniformity   libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.apple.uniformity\",           flip=TRUE, aspect=(18/11)) } # }"},{"path":"/reference/strickland.grape.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of grape — strickland.grape.uniformity","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"Uniformity trial grape Australia","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"","code":"data(\"strickland.grape.uniformity\")"},{"path":"/reference/strickland.grape.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"data frame 155 observations following 3 variables. row row col column yield yield per vine, pounds","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"Yields individual grape vines, planted 8 feet apart rows 10 feet   apart.   Grown Rutherglen, North-East Victoria, Australia, 1930. Certain sections omitted missing vines.","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of grape — strickland.grape.uniformity","text":". G. Strickland (1932).   vine uniformity trial.   Journal Agriculture, Victoria, 30, 584-593.   https://handle.slv.vic.gov.au/10381/386462","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"None","code":""},{"path":"/reference/strickland.grape.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of grape — strickland.grape.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(strickland.grape.uniformity) dat <- strickland.grape.uniformity    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.grape.uniformity\",           flip=TRUE, aspect=(31*8)/(5*10) )      # CV 43.4   sd(dat$yield, na.rm=TRUE)/mean(dat$yield, na.rm=TRUE)      # anova like Strickland, appendix 1   anova(aov(yield ~ factor(row) + factor(col), data=dat))    # numbers ending in .5 much more common than .0   # table(substring(format(na.omit(dat$yield)),4,4))   #  0   5    # 25 100   } # }"},{"path":"/reference/strickland.peach.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of peach — strickland.peach.uniformity","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"Uniformity trial peach trees Australia.","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"","code":"data(\"strickland.peach.uniformity\")"},{"path":"/reference/strickland.peach.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"data frame 144 observations following 3 variables. row row col column yield yield, pounds per tree","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"Yields weight peaches per individual tree pounds.","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of peach — strickland.peach.uniformity","text":". G. Strickland (1935).   Error horticultural experiments.   Journal Agriculture, Victoria, 33, 408-416.   https://handle.slv.vic.gov.au/10381/386642","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"None","code":""},{"path":"/reference/strickland.peach.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of peach — strickland.peach.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(strickland.peach.uniformity)   dat <- strickland.peach.uniformity    mean(dat$yield) # 131.3, Strickland has 131.3   sd(dat$yield)/mean(dat$yield) # 31.1, Strickland has 34.4    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.peach.uniformity\",           flip=TRUE, aspect=1) } # }"},{"path":"/reference/strickland.tomato.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of tomato — strickland.tomato.uniformity","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"Uniformity trial tomato Australia","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"","code":"data(\"strickland.tomato.uniformity\")"},{"path":"/reference/strickland.tomato.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"data frame 180 observations following 3 variables. row row col column yield yield per plot, pounds","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"Tomato plants placed 2 feet apart rows 4 feet apart. plot   contained 6 plants. Field dimensions given, likely design : Field length: 6 plots * 6 plants * 2 feet = 72 feet Field width: 30 plots * 4 feet = 120 feet","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":". G. Strickland (1935).   Error horticultural experiments.   Journal Agriculture, Victoria, 33, 408-416.   https://handle.slv.vic.gov.au/10381/386642","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"None","code":""},{"path":"/reference/strickland.tomato.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of tomato — strickland.tomato.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)   data(strickland.tomato.uniformity)   dat <- strickland.tomato.uniformity    mean(dat$yield)   sd(dat$yield)    libs(desplot)   desplot(dat, yield ~ col*row,           main=\"strickland.tomato.uniformity\",           flip=TRUE, aspect=(6*12)/(30*4)) } # }"},{"path":"/reference/stroup.nin.html","id":null,"dir":"Reference","previous_headings":"","what":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"yield data advanced Nebraska Intrastate Nursery (NIN) breeding   trial conducted Alliance, Nebraska, 1988/89.","code":""},{"path":"/reference/stroup.nin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"gen genotype, 56 levels rep replicate, 4 levels yield yield, bu/ac col column row row","code":""},{"path":"/reference/stroup.nin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"Four replicates 19 released cultivars, 35 experimental   wheat lines 2 additional triticale lines laid 22 row   11 column rectangular array plots.  varieties allocated   plots using randomised complete block (RCB) design.   plot sown four rows 4.3 m long 0.3 m apart.   Plots trimmed 2.4 m length harvest.    orientation plots clear paper, data   Littel et al given meters make orientation clear. Field length: 11 plots * 4.3 m = 47.3 m Field width: 22 plots * 1.2 m = 26.4 m plots missing data coded gen = \"Lancer\".   (ASREML, missing plots need included spatial analysis   level 'gen' needs one already data.) data first analyzed Stroup et al (1994) subsequently   Littell et al (1996, page 321), Pinheiro Bates (2000, page 260),   Butler et al (2004). version data give yield bushels per acre. yield   values published Stroup et al (1994) expressed kg/ha.    wheat, 1 bu/ac = 67.25 kg/ha. gen names different Stroup et al (1994).   (Sometimes experimental genotype given new name   released commercial use.)  minimum, following differences   gen names noted: published versions data use long/lat instead col/row.   obtain correct value 'long', multiply 'col' 1.2.   obtain correct value 'lat', multiply 'row' 4.3. Relatively low yields clustered northwest corner,   explained low rise part field, causing increased   exposure winter kill wind damage thus depressed yield.   genotype 'Buckskin' known superior variety,   disadvantaged assignment unfavorable locations within   blocks. Note figures Stroup 2002 claim based data,   number rows columns 1 positions   Buckskin shown Stroup 2002 appear quite right.","code":""},{"path":"/reference/stroup.nin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"Stroup, Walter W., P Stephen Baenziger, Dieter K Mulitze (1994)   Removing Spatial Variation Wheat Yield Trials: Comparison Methods.   Crop Science, 86:62–66.   https://doi.org/10.2135/cropsci1994.0011183X003400010011x","code":""},{"path":"/reference/stroup.nin.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"Littell, R.C. Milliken, G.. Stroup, W.W. Wolfinger,   R.D. 1996. SAS system mixed models, SAS Institute, Cary, NC. Jose Pinheiro Douglas Bates, 2000,   Mixed Effects Models S S-Plus, Springer. Butler, D., B R Cullis, R Gilmour, B J Goegel.  (2004)   Spatial Analysis Mixed Models S language environments W. W. Stroup (2002).   Power Analysis Based Spatial Effects Mixed Models: Tool   Comparing Design Analysis Strategies Presence Spatial   Variability. Journal Agricultural, Biological,     Environmental Statistics, 7(4), 491-511.   https://doi.org/10.1198/108571102780","code":""},{"path":[]},{"path":"/reference/stroup.nin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"RCB experiment of wheat at the Nebraska Intrastate Nursery — stroup.nin","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(stroup.nin)   dat <- stroup.nin    # Experiment layout. All \"Buckskin\" plots are near left side and suffer   # from poor fertility in two of the reps.   libs(desplot)   desplot(dat, yield~col*row,           aspect=47.3/26.4, out1=\"rep\", num=gen, cex=0.6, # true aspect           main=\"stroup.nin - yield heatmap (true shape)\")    # Dataframe to hold model predictions   preds <- data.frame(gen=levels(dat$gen))     # -----   # nlme   libs(nlme)   # Random RCB model   lme1 <- lme(yield ~ 0 + gen, random=~1|rep, data=dat, na.action=na.omit)   preds$lme1 <- fixef(lme1)    # Linear (Manhattan distance) correlation model   lme2 <- gls(yield ~ 0 + gen, data=dat,               correlation = corLin(form = ~ col + row, nugget=TRUE),               na.action=na.omit)   preds$lme2 <- coef(lme2)    # Random block and spatial correlation.   # Note: corExp and corSpher give nearly identical results   lme3 <- lme(yield ~ 0 + gen, data=dat,               random = ~ 1 | rep,               correlation = corExp(form = ~ col + row),               na.action=na.omit)   preds$lme3 <- fixef(lme3)    # AIC(lme1,lme2,lme3) # lme2 is lowest   ##      df      AIC   ## lme1 58 1333.702   ## lme2 59 1189.135   ## lme3 59 1216.704     # -----   # SpATS   libs(SpATS)    dat <- transform(dat, yf = as.factor(row), xf = as.factor(col))    # what are colcode and rowcode???   sp1 <- SpATS(response = \"yield\",                spatial = ~ SAP(col, row, nseg = c(10,20), degree = 3, pord = 2),                genotype = \"gen\",                #fixed = ~ colcode + rowcode,                random = ~ yf + xf,                data = dat,                control = list(tolerance = 1e-03))   #plot(sp1)   preds$spats <- predict(sp1, which=\"gen\")$predicted.value     # -----   # Template Model Builder   # See the ar1xar1 example:   # https://github.com/kaskr/adcomp/tree/master/TMB/inst/examples   # This example uses dpois() in the cpp file to model a Poisson response   # with separable AR1xAR1.  I think this example could be used for the   # stroup.nin data, changing dpois() to something Normal.     # -----   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)      # RCB analysis     as1 <- asreml(yield ~ gen, random = ~ rep, data=dat,                   na.action=na.method(x=\"omit\"))     preds$asreml1 <- predict(as1, data=dat, classify=\"gen\")$pvals$predicted.value          # Two-dimensional AR1xAR1 spatial model     dat <- transform(dat, xf=factor(col), yf=factor(row))     dat <- dat[order(dat$xf, dat$yf),]     as2 <- asreml(yield~gen, data=dat,                   residual = ~ar1(xf):ar1(yf),                   na.action=na.method(x=\"omit\"))     preds$asreml2 <- predict(as2, data=dat, classify=\"gen\")$pvals$predicted.value      lucid::vc(as2)     ##     effect component std.error z.ratio constr     ## R!variance   48.7      7.155       6.8    pos     ##   R!xf.cor    0.6555   0.05638    12      unc     ##   R!yf.cor    0.4375   0.0806      5.4    unc    # Compare the estimates from the two asreml models.   # We see that Buckskin has correctly been shifted upward by the spatial model     plot(preds$as1, preds$as2, xlim=c(13,37), ylim=c(13,37),          xlab=\"RCB\", ylab=\"AR1xAR1\", type='n')     title(\"stroup.nin: Comparison of predicted values\")     text(preds$asreml1, preds$asreml2, preds$gen, cex=0.5)     abline(0,1)   }    # -----   # sommer   # Fixed gen, random row, col, 2D spline   libs(sommer)   dat <- stroup.nin   dat <- transform(dat, yf = as.factor(row), xf = as.factor(col))   so1 <- mmer(yield ~ 0+gen,               random = ~ vs(xf) + vs(yf) + spl2Db(row,col),               data=dat)   preds$so1 <- coef(so1)[,\"Estimate\"]   # spatPlot    # -----   # compare variety effects from different packages   lattice::splom(preds[,-1], main=\"stroup.nin\")  } # }"},{"path":"/reference/stroup.splitplot.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of simulated data — stroup.splitplot","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"simulated dataset simple split-plot experiment, used   illustrate details calculating predictable functions (broad   space, narrow space, etc.). example, density narrow, intermediate broad-space   predictable function factor level A1 shown (html help )","code":""},{"path":"/reference/stroup.splitplot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"y simulated response rep replicate, 4 levels b sub-plot, 2 levels whole-plot, 3 levels Used permission Walt Stroup.","code":""},{"path":"/reference/stroup.splitplot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"Walter W. Stroup, 1989.   Predictable functions prediction space mixed model procedure.   Applications Mixed Models Agriculture Related Disciplines.","code":""},{"path":"/reference/stroup.splitplot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"Wolfinger, R.D. Kass, R.E., 2000.   Nonconjugate Bayesian analysis variance component models,   Biometrics, 56, 768–774.   https://doi.org/10.1111/j.0006-341X.2000.00768.x","code":""},{"path":"/reference/stroup.splitplot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of simulated data — stroup.splitplot","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(stroup.splitplot)   dat <- stroup.splitplot    # ---- lme4 ---   # libs(lme4)   # m0 <- lmer(y~ -1 + a + b + a:b + (1|rep) + (1|a:rep), data=dat)   # No predict function      # ----- nlme ---   # libs(nlme)   # m0 <- lme(y ~ -1 + a + b + a:b, data=dat, random = ~ 1|rep/a)      # ----- ASREML model ---   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     m1 <- asreml(y~ -1 + a + b + a:b, random=~ rep + a:rep, data=dat)        # vc(m1) # Variance components match Stroup p. 41     ##   effect component std.error z.ratio bound     ##      rep    62.42     56.41      1.1     P     ##    a:rep    15.39     11.8       1.3     P     ## units(R)     9.364     4.415     2.1     P          # Narrow space predictions     predict(m1, data=dat, classify=\"a\", average=list(rep=NULL))     #  a Predicted Std Err    Status     # a1     32.88   1.082 Estimable     # a2     34.12   1.082 Estimable     # a3     25.75   1.082 Estimable          # Intermediate space predictions     predict(m1, data=dat, classify=\"a\", ignore=\"a:rep\",             average=list(rep=NULL))     #  a Predicted Std Err    Status     # a1     32.88    2.24 Estimable     # a2     34.12    2.24 Estimable     # a3     25.75    2.24 Estimable          # Broad space predictions     predict(m1, data=dat, classify=\"a\")     #  a Predicted Std Err    Status     # a1     32.88    4.54 Estimable     # a2     34.12    4.54 Estimable     # a3     25.75    4.54 Estimable   }        # ----- MCMCglmm model -----   # Use the point estimates from REML with a prior distribution   libs(lattice,MCMCglmm)   prior2 = list(     G = list(G1=list(V=62.40, nu=1),              G2=list(V=15.38, nu=1)),     R = list(V = 9.4, nu=1)   )   m2 <- MCMCglmm(y~ -1 + a + b + a:b,                  random=~ rep + a:rep, data=dat,                  pr=TRUE, # save random effects as columns of 'Sol'                  nitt=23000, # double the default 13000                  prior=prior2, verbose=FALSE)    # posterior.mode(m2$VCV)   #       rep     a:rep     units    # 39.766020  9.617522  7.409334   # plot(m2$VCV)    # Now create a matrix of coefficients for the prediction.   # Each column is for a different prediction.  For example,   # the values in the column called 'a1a2n' are multiplied times   # the model coefficients (identified at the right side) to create   # the linear contrast for the the narrow-space predictions   # (also called adjusted mean) for the a1:a2 interaction.   #              a1n   a1i  a1b a1a2n a1a2ib   cm <- matrix(c(1,   1,   1,    1,    1,   # a1                  0,   0,   0,   -1,   -1,   # a2                  0,   0,   0,    0,    0,   # a3                  1/2, 1/2, 1/2,    0,    0,   # b2                  0,   0,   0,  -1/2,  -1/2, # a2:b2                  0,   0,   0,    0,    0,   # a3:b2                  1/4, 1/4,   0,    0,    0,   # r1                  1/4, 1/4,   0,    0,    0,   # r2                  1/4, 1/4,   0,    0,    0,   # r3                  1/4, 1/4,   0,    0,    0,   # r4                  1/4,   0,   0,  1/4,    0,   # a1r1                  0,   0,   0, -1/4,    0,   # a2r1                  0,   0,   0,    0,    0,   # a3r1                1/4,   0,   0,  1/4,    0,   # a1r2                  0,   0,   0, -1/4,    0,   # a2r2                  0,   0,   0,    0,    0,   # a3r2                1/4,   0,   0,  1/4,    0,   # a1r3                  0,   0,   0, -1/4,    0,   # a2r3                  0,   0,   0,    0,    0,   # a3r3                1/4,   0,   0,  1/4,    0,   # a1r4                  0,   0,   0, -1/4,    0,   # a2r4                  0,   0,   0,    0,    0),  # a3r4                ncol=5, byrow=TRUE)   rownames(cm) <-   c(\"a1\", \"a2\", \"a3\", \"b2\", \"a2:b2\", \"a3:b2\",                       \"r1\", \"r2\", \"r3\", \"r4\",                       \"a1r1\", \"a1r2\", \"a1r3\", \"a1r4\", \"a2r1\", \"a2r2\",                       \"a2r3\", \"a2r4\", \"a3r1\", \"a3r2\",  \"a3r3\", \"a3r4\")   colnames(cm) <- c(\"A1n\",\"A1i\",\"A1b\", \"A1-A2n\", \"A1-A2ib\")   print(cm)   # post2 <- as.mcmc(m2$Sol    post2 <- as.mcmc(crossprod(t(m2$Sol), cm))    # Following table has columns for A1 estimate (narrow, intermediate, broad)   # A1-A2 estimate (narrow and intermediat/broad).   # The REML estimates are from Stroup 1989.   est <- rbind(\"REML est\"=c(32.88, 32.88, 32.88, -1.25, -1.25),                \"REML stderr\"=c(1.08, 2.24, 4.54, 1.53, 3.17),                \"MCMC mode\"=posterior.mode(post2),                \"MCMC stderr\"=apply(post2, 2, sd))   round(est,2)   #               A1n   A1i   A1b A1-A2n A1-A2ib   # REML est    32.88 32.88 32.88  -1.25   -1.25   # REML stderr  1.08  2.24  4.54   1.53    3.17   # MCMC mode   32.95 32.38 31.96  -1.07   -1.17   # MCMC stderr  1.23  2.64  5.93   1.72    3.73   # plot(post2)      post22 <- lattice::make.groups(     Narrow=post2[,1], Intermediate=post2[,2], Broad=post2[,3])   print(densityplot(~data|which, data=post22, groups=which,                     cex=.25, lty=1, layout=c(1,3),                     main=\"stroup.splitplot\",                     xlab=\"MCMC model value of predictable function for A1\"))  } # }"},{"path":"/reference/student.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley — student.barley","title":"Multi-environment trial of barley — student.barley","text":"Yield two varieties barley grown 51 locations years   1901 1906.","code":""},{"path":"/reference/student.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley — student.barley","text":"data frame 102 observations following 7 variables. year year, 1901-1906 farmer farmer name place place (nearest town) district district, geographical area gen genotype, Archer Goldthorpe yield yield, 'stones' per acre (1 stone = 14 pounds) income income per acre shillings, based yield quality","code":""},{"path":"/reference/student.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley — student.barley","text":"Experiments conducted six years Department   Agriculture Ireland.  total seven varieties tested,   Archer Goldthorpe tested six years (others   dropped found inferior, added later).  Plots   two acres size.  value grain depended yield   quality.  Quality varied much farm farm, much within   farm. phrase \"analysis variance\" first appears abstract ()   1918 paper Fisher.  1923 paper Student contained   first analysis variance table (data). One stone 14 pounds.   convert lb/ac tonnes/ha, multiply 0.00112085116 Note: analysis Student reproduced exactly.    example, Student states maximum income Goldthorpe 230   shillings.  quick glance Table Student shows   maximum income Goldthorpe 220 shillings (11 pounds, 0   shillings) 1901 Thurles.  Also, results Kempton   reproduced exactly, perhaps due rounding conversion   factor used.","code":""},{"path":"/reference/student.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley — student.barley","text":"Student. 1923.   Testing Varieties Cereals.   Biometrika, 15, 271–293.   https://doi.org/10.1093/biomet/15.3-4.271","code":""},{"path":"/reference/student.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley — student.barley","text":"R Kempton P N Fox, 1997.   Statistical Methods Plant Variety Evaluation.","code":""},{"path":"/reference/student.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley — student.barley","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(student.barley)   dat <- student.barley    libs(lattice)   bwplot(yield ~ gen|district, dat, main=\"student.barley - yield\")    dat$year <- factor(dat$year)   dat$income <- NULL      # convert to tons/ha   dat <- transform(dat, yield=yield*14 * 0.00112085116)      # Define 'loc' the way that Kempton does   dat$loc <- rep(\"\",nrow(dat))   dat[is.element(dat$farmer, c(\"Allardyce\",\"Roche\",\"Quinn\")),\"loc\"] <- \"1\"   dat[is.element(dat$farmer, c(\"Luttrell\",\"Dooley\")), \"loc\"] <- \"2\"   dat[is.element(dat$year, c(\"1904\",\"1905\",\"1906\")) & dat$farmer==\"Kearney\",\"loc\"] <- \"2\"   dat[dat$farmer==\"Mulhall\",\"loc\"] <- \"3\"      dat <- transform(dat, loc=factor(paste(place,loc,sep=\"\")))      libs(reshape2)   datm <- melt(dat, measure.var='yield')    # Kempton Table 9.5   round(acast(datm, loc+gen~year),2)    # Kempton Table 9.6   d2 <- dcast(datm, year+loc~gen)   mean(d2$Archer)   mean(d2$Goldthorpe)   mean(d2$Archer-d2$Goldthorpe)   sqrt(var(d2$Archer-d2$Goldthorpe)/51)   cor(d2$Archer,d2$Goldthorpe)   if(0){   # Kempton Table 9.6b   libs(lme4)   m2 <- lmer(yield~1 + (1|loc) + (1|year) +                (1|loc:year) + (1|gen:loc) + (1|gen:year), data=dat,              control=lmerControl(check.nobs.vs.rankZ=\"ignore\")) }  } # }"},{"path":"/reference/summerby.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"Uniformity trial maize, oat, alfalfa, mangolds","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"","code":"data(\"summerby.multi.uniformity\")"},{"path":"/reference/summerby.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"data frame 2600 observations following 6 variables. col column ordinate row row ordinate yield yield range range (block field) year year crop crop","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"Note plots range across years.   example plots range R2 1922, 1923, 1924,   1925. Grown Macdonald College, Quebec.   Four ranges land 760 x 100 links used.   years 1922-1926, crops harvested 20 link 20 links   plots. oats, yields cleaned grain.   mangolds alfalfa, yields dry matter calculated.   maize, green weights fodder obtained.   1925, range R3 oats damaged birds.   1927, range R4 oats lodges harvested.   1924 range R5 flooding considered 'inadvisable' use.   1914 range R3 oat yield variable, perhaps poor germination.   Data included completeness, perhaps included. row numbers data based figure page 13 Summerby.   Row 1 bottom. appears approximately blank row ranges. paper Summerby year/range combinations,   plots 20 links 100 links single plot wide. data converted PDF png images, OCR converted   text, hand-checked K.Wright.","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"Summerby, R. (1934).   value preliminary uniformity trials increasing precision field experiments.   Macdonald College.   https://books.google.com/books?id=6zlMAAAAYAAJ&pg=RA14-PA47","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"None","code":""},{"path":"/reference/summerby.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of maize, oat, alfalfa, mangolds — summerby.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(summerby.multi.uniformity)   dat <- summerby.multi.uniformity    libs(desplot)   dat <- mutate(dat, env=paste(range, year, crop))   desplot(dat, yield ~ col*row|env, aspect=(5*20)/(35*20),           main=\"summerby.multi.uniformity\")    # Show all ranges for a single year.   # dat     # Compare the variance for each dataset in Summerby, page 18, column (a)   # with what we calculate.  Very slight differences.   # libs(dplyr)   # dat    ## range  year       var  summerby   ##  1 R2     1922  82404      82404   ##  2 R2     1923 254780.    254780     ##  3 R2     1924 111978.    111978     ##  4 R2     1925  84515.     84515     ##  5 R2     1926 101008.    100960     ##  6 R3     1922 185031.    185031     ##  7 R3     1923 154777.    154784    ##  8 R3     1924 252451.    252451     ##  9 R3     1926 472087.    472088     ## 10 R4     1924     19.3       19.341    ## 11 R4     1925     14.2       14.234    ## 12 R4     1926     14.2       14.236    ## 13 R5     1924 134472.    134472     ## 14 R5     1925 289001.    289026     ## 15 R5     1926 131714.    131714     ## 16 R5     1927      8.62       8.622  } # }"},{"path":"/reference/tai.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of potato — tai.potato","title":"Multi-environment trial of potato — tai.potato","text":"Multi-environment trial potato tuber yields","code":""},{"path":"/reference/tai.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of potato — tai.potato","text":"","code":"data(\"tai.potato\")"},{"path":"/reference/tai.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of potato — tai.potato","text":"data frame 48 observations following 6 variables. yield yield, kg/plot gen genotype code variety variety name env environment code loc location year year","code":""},{"path":"/reference/tai.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of potato — tai.potato","text":"Mean tuber yield 8 genotypes 3 locations two years.   Katahdin Sebago check varieties.  location planted   4-rep RCB design. Tai's plot stability parameters, F5751 Sebago   average stability area.  highest yielding genotype F6032   unstable performance.","code":""},{"path":"/reference/tai.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of potato — tai.potato","text":"G.C.C. Tai, 1971.   Genotypic stability analysis application potato regional trials.   Crop Sci 11, 184-190.  Table 2, p. 187.   https://doi.org/10.2135/cropsci1971.0011183X001100020006x","code":""},{"path":"/reference/tai.potato.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of potato — tai.potato","text":"George Fernandez (1991).   Analysis Genotype x Environment Interaction Stability Estimates.   Hort Science, 26, 947-950.","code":""},{"path":"/reference/tai.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of potato — tai.potato","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(tai.potato) dat <- tai.potato  libs(lattice) dotplot(variety ~ yield|env, dat, main=\"tai.potato\")  # fixme - need to add tai() example  # note, st4gi::tai assumes there are replications in the data # https://github.com/reyzaguirre/st4gi/blob/master/R/tai.R } # }"},{"path":"/reference/talbot.potato.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"Yield 14 trait scores 9 potato varieties 12   locations UK.","code":""},{"path":"/reference/talbot.potato.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"","code":"data(\"talbot.potato.traits\") data(\"talbot.potato.yield\")"},{"path":"/reference/talbot.potato.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"talbot.potato.yield dataframe 126 observations following 3 variables. gen genotype/variety trait trait score trait score, 1-9 talbot.potato.yield dataframe 108 observations following 3 variables. gen genotype/variety loc location/center yield yield, t/ha","code":""},{"path":"/reference/talbot.potato.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"talbot.potato.yield dataframe contains mean tuber yields   (t/ha) 9 varieties potato 12 centers United Kingdom   five years 1983-1987.  following abbreviations used   centers.  Used permission Mike Talbot.","code":""},{"path":"/reference/talbot.potato.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"Mike Talbot V Wheelwright, 1989,   analysis genotype x analysis interactions partial   least squares regression.   Biuletyn Oceny Odmian, 21/22, 19–25.","code":""},{"path":"/reference/talbot.potato.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of potato in UK, yields and trait scores at 12 locations — talbot.potato","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  libs(pls, reshape2)  data(talbot.potato.traits) datt <- talbot.potato.traits data(talbot.potato.yield) daty <- talbot.potato.yield  datt <- acast(datt, gen ~ trait, value.var='score') daty <- acast(daty, gen ~ loc, value.var='yield')    # Transform columns to zero mean and unit variance datt <- scale(datt) daty <- scale(daty)  m1 <- plsr(daty ~ datt, ncomp=3) summary(m1)  # Loadings factor 1 lo <- loadings(m1)[,1,drop=FALSE] round(-1*lo[order(-1*lo),1,drop=FALSE],2)  biplot(m1, main=\"talbot.potato - biplot\")  } # }"},{"path":"/reference/tesfaye.millet.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of millet — tesfaye.millet","title":"Multi-environment trial of millet — tesfaye.millet","text":"Multi-environment trial millet","code":""},{"path":"/reference/tesfaye.millet.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of millet — tesfaye.millet","text":"","code":"data(\"tesfaye.millet\")"},{"path":"/reference/tesfaye.millet.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of millet — tesfaye.millet","text":"data frame 415 observations following 9 variables. year year site site (location) rep replicate col column ordinate row row ordinate plot plot number gen genotype entry_number entry yield yield, kg/ha","code":""},{"path":"/reference/tesfaye.millet.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of millet — tesfaye.millet","text":"Experiments conducted Bako Assosa research centers Ethiopia.   data :   4 years, 2 sites = 7 environments,   2-3 reps per trial,   47 genotypes. Tesfaye et al used asreml fit GxE model Factor Analytic   covariance structure GxE part AR1xAR1 spatial   residuals site. Data PloS ONE  published Creative Commons Attribution License.","code":""},{"path":"/reference/tesfaye.millet.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of millet — tesfaye.millet","text":"Tesfaye K, Alemu T, Argaw T, de Villiers S, Assefa E (2023)   Evaluation finger millet (Eleusine coracana (L.) Gaertn.) multi-environment trials using enhanced statistical models.   PLoS ONE 18(2): e0277499.   https://doi.org/10.1371/journal.pone.0277499","code":""},{"path":"/reference/tesfaye.millet.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of millet — tesfaye.millet","text":"None","code":""},{"path":"/reference/tesfaye.millet.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of millet — tesfaye.millet","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(tesfaye.millet)   dat <- tesfaye.millet    dat <- transform(dat, year=factor(year), site=factor(site))   libs(dplyr,asreml,lucid)   dat <- mutate(dat,                 env=factor(paste0(site,year)),                 gen=factor(gen),                 rep=factor(rep),                 xfac=factor(col), yfac=factor(row))   libs(desplot)   desplot(dat, yield~col*row|env, main=\"tesfaye.millet\")   dat <- arrange(dat, env, xfac, yfac)    # Fixed environment   # Random row/col within environment, Factor Analytic GxE   # AR1xAR1 spatial residuals within each environment   if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     m1 <- asreml(yield ~ 1 + env,                  data=dat,                  random = ~  at(env):xfac + at(env):yfac + gen:fa(env),                  residual = ~ dsum( ~ ar1(xfac):ar1(yfac)|env) )     m1 <- update(m1)     lucid::vc(m1)   }  } # }"},{"path":"/reference/theobald.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"Barley yields multiple locs, years, fertilizer levels","code":""},{"path":"/reference/theobald.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"","code":"data(\"theobald.barley\")"},{"path":"/reference/theobald.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"data frame 105 observations following 5 variables. yield yield, tonnes/ha gen genotype loc location, 5 levels nitro nitrogen kg/ha year year, 2 levels","code":""},{"path":"/reference/theobald.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"Theobald Talbot used BUGS fit fully Bayesian model   yield response curves. Locations experiment north-east Scotland. Assumed nitrogen cost 400 pounds per tonne.   Grain prices used 100, 110, 107.50 pounds per tonne   Georgie, Midas Sundance.","code":""},{"path":"/reference/theobald.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"Chris M. Theobald Mike Talbot, (2002).   Bayesian choice crop variety fertilizer dose.   Appl Statistics, 51, 23-36.   https://doi.org/10.1111/1467-9876.04863 Data provided Chris Theobald Mike Talbot.","code":""},{"path":"/reference/theobald.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley, multiple years & fertilizer levels — theobald.barley","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(theobald.barley) dat <- theobald.barley dat <- transform(dat,  env=paste(loc,year,sep=\"-\")) dat <- transform(dat, income=100*yield - 400*nitro/1000)  libs(lattice) xyplot(income~nitro|env, dat, groups=gen, type='b',        auto.key=list(columns=3), main=\"theobald.barley\")  } # }"},{"path":"/reference/theobald.covariate.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"Corn silage yields maize 5 years 7 districts 10 hybrids.","code":""},{"path":"/reference/theobald.covariate.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"data frame 256 observations following 5 variables. year year, 1990-1994 env environment/district, 1-7 gen genotype, 1-10 yield dry-matter silage yield corn chu corn heat units, thousand degrees Celsius Used permission Chris Theobald.","code":""},{"path":"/reference/theobald.covariate.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"trials carried seven districts maritime   provinces Eastern Canada.   Different fields used successive years.   covariate CHU (Corn Heat Units) accumulated average daily   temperatures (thousands degrees Celsius) growing season   location.","code":""},{"path":"/reference/theobald.covariate.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"Chris M. Theobald Mike Talbot Fabian Nabugoomu, 2002.   Bayesian Approach Regional Local-Area Prediction Crop   Variety Trials.   Journ Agric Biol Env Sciences, 7, 403–419.   https://doi.org/10.1198/108571102230","code":""},{"path":"/reference/theobald.covariate.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn silage, Year * Loc * Variety with covariate — theobald.covariate","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(theobald.covariate)   dat <- theobald.covariate   libs(lattice)   xyplot(yield ~ chu|gen, dat, type=c('p','smooth'),          xlab =  \"chu = corn heat units\",          main=\"theobald.covariate - yield vs heat\")    # REML estimates (Means) in table 3 of Theobald 2002   libs(lme4)   dat <- transform(dat, year=factor(year))   m0 <- lmer(yield ~ -1 + gen + (1|year/env) + (1|gen:year), data=dat)   round(fixef(m0),2)     # Use JAGS to fit Theobald (2002) model 3.2 with 'Expert' prior   # Requires JAGS to be installed   if(0) {    libs(reshape2)   ymat <- acast(dat, year+env~gen, value.var='yield')   chu <- acast(dat, year+env~., mean, value.var='chu', na.rm=TRUE)   chu <- as.vector(chu - mean(chu))  # Center the covariate   dat$yr <- as.numeric(dat$year)   yridx <- as.vector(acast(dat, year+env~., mean, value.var='yr', na.rm=TRUE))   dat$loc <- as.numeric(dat$env)   locidx <- acast(dat, year+env~., mean, value.var='loc', na.rm=TRUE)   locidx <- as.vector(locidx)    jdat <- list(nVar = 10, nYear = 5, nLoc = 7, nYL = 29, yield = ymat,               chu = chu, year = yridx, loc = locidx)    libs(rjags)   m1 <- jags.model(file=system.file(package=\"agridat\", \"files/theobald.covariate.jag\"),     data=jdat, n.chains=2)    # Table 3, Variety deviations from means (Expert prior)   c1 <- coda.samples(m1, variable.names=(c('alpha')),                      n.iter=10000, thin=10)   s1 <- summary(c1)   effs <- s1$statistics[,'Mean']   # Perfect match (different order?)   rev(sort(round(effs - mean(effs), 2)))    } } # }"},{"path":"/reference/thompson.cornsoy.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Average yield corn soybeans five U.S. states   (IA, IL, , MO, OH) years 1930-1962.   Pre-season precipitation average temperature precipitation   month growing season included.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"state state year year, 1930-1962 rain0 pre-season precipitation inches temp5 may temperature, Fahrenheit rain6 june rain, inches temp6 june temp rain7 july rain temp7 july temp rain8 august rain temp8 august temp corn corn yield, bu/acre soy soybean yield, bu/acre","code":""},{"path":"/reference/thompson.cornsoy.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Note: Iowa corn data sometimes identified (  sources) \"Iowa wheat\" data, incorrect. 'year' variable affects yield (1) improvements   plant genetics (2) changes management techniques   fertilizer, chemicals, tillage, planting date,   (3) climate, pest infestations, etc. Double-cross corn hybrids introduced 1920s.  Single-cross   hybrids became common around 1960. World War II, nitrogen used production TNT   bombs.  war, factories switched producing ammonia   fertilizer.  Nitrogen fertilizer use greatly increased WWII   major reason yield gains corn.  Soybeans gain little   benefit nitrogen fertilizer.  major reason   increasing yields crops due improved plant genetics. Crops often planted May, harvest begins September. Yields 1936 low due July one hottest   driest record. relevant maps yield, heat, precipitation can found   Atlas crop yield summer weather patterns, 1931-1975,   https://www.isws.illinois.edu/pubdoc/C/ISWSC-150.pdf following notes pertain Iowa data. 1947 June precipitation 10.33 inches wettest June   record (new Iowa June record 10.34 inches set 2010).   quoted Monthly Weather Review (Dec 1957, p. 396)   \"dependence Iowa agriculture upon vagaries weather   closely demonstrated 1947 season.  cool wet spring   delayed crop planting activity plant growth;   , addition, hard freeze May 29th ... set back   corn.  heavy rains subsequent floods June caused   appreciable crop acreage abandoned ... followed hot dry   weather regime persisted mid-July first week   September.\" 1949 soybean yields average corn yields low.   source ,   \"year 1949 saw greatest infestation corn borer   history corn Iowa\". 1955 yields reduced due dry weather late July August.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Thompson, L.M., 1963. Weather technology production     corn soybeans. CAED Report 17. Center Agriculture   Economic Development, Iowa State University, Ames, Iowa.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"Draper, N. R. Smith, H. (1981).  Applied Regression Analysis,   second ed., Wiley, New York.","code":""},{"path":"/reference/thompson.cornsoy.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of corn & soybean, 1930-1962, with temperature and precipitation — thompson.cornsoy","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(thompson.cornsoy) dat <- thompson.cornsoy  # The droughts of 1934/36 were severe in IA/MO. Less so in OH. libs(lattice) xyplot(corn+soy~year|state, dat,        type=c('p','l','r'), auto.key=list(columns=2),        main=\"thompson.cornsoy\",        layout=c(5,1),ylab='yield')  # In 1954, only Missouri suffered very hot, dry weather ## xyplot(corn~year, dat, ##        groups=state, type=c('p','l'), ##        main=\"thompson.cornsoy\", ##        auto.key=list(columns=5), ylab='corn yield')  # Rain and temperature have negative correlation in each month. # July is a critical month: temp and yield are negatively correlated, # while rain and yield are positively correlated. # splom(~dat[-1,-1], col=dat$state, cex=.5, main=\"thompson.cornsoy\")    # Plots similar to those in Venables' Exegeses paper.    dat.ia <- subset(dat, state==\"Iowa\")    libs(splines)   m2 <- aov(corn ~ ns(rain0, 3) + ns(rain7, 3) +               ns(temp8, 3) + ns(year,3), dat.ia)   op <- par(mfrow=c(2,2))   termplot(m2, se=TRUE, rug=TRUE, partial=TRUE, main=\"thompson.cornsoy\")   par(op)    # do NOT use gam package   libs(mgcv)   m1 <- gam(corn ~ s(year, k=5) + s(rain0, k=5) +               s(rain7, k=5) + s(temp8, k=5), data=dat.ia)   op <- par(mfrow=c(2,2))   plot.gam(m1, residuals=TRUE, se=TRUE, cex=2, main=\"thompson.cornsoy\")   par(op) } # }"},{"path":"/reference/tulaikow.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"Uniformity trial winter/spring wheat Russia","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"","code":"data(\"tulaikow.wheat.uniformity\")"},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"data frame 480 observations following 4 variables. row row ordinate col column ordinate yield yield grams per plot season winter summer","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"Land fallow 1911, harvested 1912 Bezenchuk   Experimental Station Russia. winter wheat field 240 square   sazhen (24 x 10 sazhen) divided separate plots   1 square sazhen, cut, threshed weighed separately. way, plot Poltavka spring wheat harvested plot   240 square sazhen dimensions 15 16 sazhen divided   plots 1 square sazhen. Winter wheat: Field length: 10 rows * 1 sazhen. Field width: 24 columns * 1 sazhen. Summer wheat: Field length: 16 rows * 1 sazhen. Field width: 15 columns * 1 sazhen. Note: Russian word “саж” refers unit   measurement. Specifically, represents sazhen (саже́нь   са́жень), used traditional Russian systems   measurement. sazhen approximately 3 meters (7 feet)   long. Google Translate sometimes converts \"sazhen\" \"soot\",   \"meter\" \"fathom\". data typed K.Wright Roemer (1920), table 4, p. 63.","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"N. Tulaikow (1913)   Resultate einer mathematischen Bearbeitung von Ernteergebnissen.   Russian Journal fur Exp Landw., 14, 88-113. https://www.google.com/books/edition/Journal_de_l_agriculture_experimentale/i2EjAQAAIAAJ?hl=en&gbpv=1&dq=tulaikow","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"Neyman, J., & Iwaszkiewicz, K. (1935).   Statistical problems agricultural experimentation.   Supplement Journal Royal Statistical Society, 2(2), 107-180. Roemer, T. (1920).   Der Feldversuch.   Arbeiten der Deutschen Landwirtschafts-Gesellschaft, 302.   https://www.google.com/books/edition/Arbeiten_der_Deutschen_Landwirtschafts_G/7zBSAQAAMAAJ","code":""},{"path":"/reference/tulaikow.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of winter/spring wheat — tulaikow.wheat.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(tulaikow.wheat.uniformity)   dat <- tulaikow.wheat.uniformity      libs(desplot)   desplot(dat, yield~col*row, subset=season==\"winter\",           aspect=10/24, flip=TRUE, tick=TRUE,           main=\"tulaikow.wheat.uniformity (winter)\")   desplot(dat, yield~col*row, subset=season==\"summer\",           aspect=16/15, flip=TRUE, tick=TRUE,           main=\"tulaikow.wheat.uniformity (summer)\") } # }"},{"path":"/reference/turner.herbicide.html","id":null,"dir":"Reference","previous_headings":"","what":"Herbicide control of larkspur — turner.herbicide","title":"Herbicide control of larkspur — turner.herbicide","text":"Herbicide control larkspur","code":""},{"path":"/reference/turner.herbicide.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Herbicide control of larkspur — turner.herbicide","text":"","code":"data(\"turner.herbicide\")"},{"path":"/reference/turner.herbicide.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Herbicide control of larkspur — turner.herbicide","text":"data frame 12 observations following 4 variables. rep rep factor rate rate herbicide live number live plants application dead number plants killed herbicide","code":""},{"path":"/reference/turner.herbicide.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Herbicide control of larkspur — turner.herbicide","text":"Effectiveness herbicide Picloram larkspur plants 4 doses   (0, 1.1, 2.2, 4.5) 3 reps.  Experiment done 1986 Manti,   Utah.","code":""},{"path":"/reference/turner.herbicide.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Herbicide control of larkspur — turner.herbicide","text":"David L. Turner Michael H. Ralphs John O. Evans (1992).   Logistic Analysis Monitoring Assessing Herbicide Efficacy.   Weed Technology, 6, 424-430.   https://www.jstor.org/stable/3987312","code":""},{"path":"/reference/turner.herbicide.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Herbicide control of larkspur — turner.herbicide","text":"Christopher Bilder, Thomas Loughin.   Analysis Categorical Data R.","code":""},{"path":"/reference/turner.herbicide.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Herbicide control of larkspur — turner.herbicide","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(turner.herbicide)   dat <- turner.herbicide      dat <- transform(dat, prop=dead/live)   # xyplot(prop~rate,dat, pch=20, main=\"turner.herbicide\", ylab=\"Proportion killed\")    m1 <- glm(prop~rate, data=dat, weights=live, family=binomial)   coef(m1) # -3.46, 2.6567  Same as Turner eqn 3      # Make conf int on link scale and back-transform   p1 <- expand.grid(rate=seq(0,to=5,length=50))   p1 <- cbind(p1, predict(m1, newdata=p1, type='link', se.fit=TRUE))   p1 <- transform(p1, lo = plogis(fit - 2*se.fit),                   fit = plogis(fit),                   up = plogis(fit + 2*se.fit))      # Figure 2 of Turner   libs(latticeExtra)   foo1 <- xyplot(prop~rate,dat, cex=1.5,                  main=\"turner.herbicide (model with 2*S.E.)\",                  xlab=\"Herbicide rate\", ylab=\"Proportion killed\")   foo2 <- xyplot(fit~rate, p1, type='l')   foo3 <- xyplot(lo+up~rate, p1, type='l', lty=1, col='gray')   print(foo1 + foo2 + foo3)     # What dose gives a LD90 percent kill rate?   # libs(MASS)   # dose.p(m1, p=.9)   ##             Dose       SE   ## p = 0.9: 2.12939 0.128418    # Alternative method   # libs(car) # logit(.9) = 2.197225   # deltaMethod(m1, g=\"(log(.9/(1-.9))-b0)/(b1)\", parameterNames=c('b0','b1'))   ##                      Estimate       SE   ## (2.197225 - b0)/(b1)  2.12939 0.128418      # What is a 95 percent conf interval for LD90?  Bilder & Loughin page 138   root <- function(x, prob=.9, alpha=0.05){     co <- coef(m1)    # b0,b1     covs <- vcov(m1)  # b00,b11,b01     # .95 = b0 + b1*x     # (b0+b1*x) + Z(alpha/2) * sqrt(b00 + x^2*b11 + 2*x*b01) > .95     # (b0+b1*x) - Z(alpha/2) * sqrt(b00 + x^2*b11 + 2*x*b01) < .95     f <- abs(co[1] + co[2]*x - log(prob/(1-prob))) /       sqrt(covs[1,1] + x^2 * covs[2,2] + 2*x*covs[1,2])     return( f - qnorm(1-alpha/2))   }   lower <- uniroot(f=root, c(0,2.13))   upper <- uniroot(f=root, c(2.12, 5))   c(lower$root, upper$root)   # 1.92 2.45    } # }"},{"path":"/reference/urquhart.feedlot.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight gain calves in a feedlot — urquhart.feedlot","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"Weight gain calves feedlot, given three different diets.","code":""},{"path":"/reference/urquhart.feedlot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"","code":"data(\"urquhart.feedlot\")"},{"path":"/reference/urquhart.feedlot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"data frame 67 observations following 5 variables. animal animal ID herd herd ID diet diet: Low, Medium, High weight1 initial weight weight2 slaughter weight","code":""},{"path":"/reference/urquhart.feedlot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"Calves born 1975 11 different herds entered feedlot   yearlings. animal fed one three diets low, medium,   high energy. original sources explored use contrasts   comparing breeds.","code":""},{"path":"/reference/urquhart.feedlot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"N. Scott Urquhart (1982).   Adjustment Covariance One Factor Affects Covariate   Biometrics, 38, 651-660.  Table 4, p. 659.   https://doi.org/10.2307/2530046","code":""},{"path":"/reference/urquhart.feedlot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"N. Scott Urquhart David L. Weeks (1978).   Linear Models Messy Data: Problems Alternatives   Biometrics, 34, 696-705.   https://doi.org/10.2307/2530391 Also available 'emmeans' package 'feedlot' data.","code":""},{"path":"/reference/urquhart.feedlot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight gain calves in a feedlot — urquhart.feedlot","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(urquhart.feedlot)   dat <- urquhart.feedlot    libs(reshape2)   d2 <- melt(dat, id.vars=c('animal','herd','diet'))    libs(latticeExtra)   useOuterStrips(xyplot(value ~ variable|diet*herd, data=d2, group=animal,                         type='l',                         xlab=\"Initial & slaughter timepoint for each diet\",                         ylab=\"Weight for each herd\",                         main=\"urquhart.feedlot - weight gain by animal\"))     # simple fixed-effects model    dat <- transform(dat, animal = factor(animal), herd=factor(herd))   m1 <- lm(weight2 ~ weight1 + herd*diet, data = dat)   coef(m1) # weight1 = 1.1373 match Urquhart table 5 common slope      # random-effects model might be better, for example   # libs(lme4)   # m1 <- lmer(weight2 ~ -1 + diet + weight1 + (1|herd), data=dat)   # summary(m1) # weight1 = 1.2269    } # }"},{"path":"/reference/usgs.herbicides.html","id":null,"dir":"Reference","previous_headings":"","what":"Concentrations of herbicides in streams in the United States — usgs.herbicides","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"Concentrations selected herbicides degradation products   determined laboratory method analysis code GCS water samples   collected 51 streams nine Midwestern States,2002","code":""},{"path":"/reference/usgs.herbicides.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"","code":"data(\"usgs.herbicides\")"},{"path":"/reference/usgs.herbicides.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"data frame 184 observations following 19 variables. mapnum map number usgsid USGS ID long longitude lat latitude site site name city city sampletype sample type code date date sample collected hour hour sample collected acetochlor concentration character alachlor concentration character ametryn concentration character atrazine concentration character CIAT concentration character CEAT concentration character cyanazine concentration character CAM concentration character dimethenamid concentration character flufenacet concentration character","code":""},{"path":"/reference/usgs.herbicides.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"Concentrations selected herbicides degradation products determined laboratory method analysis code GCS water samples collected 51 streams nine Midwestern States, 2002. concentrations micrograms/liter, \"<\" means \"less \". data character format allow \"<\". original report contains data herbicides. data illustrative purposes. Sample types: CR = concurrent replicate sample, FB = field blank, LD = laboratory duplicate, S1 = sample pre-emergence runoff, S2 = sample post-emergence runoff, S3 = sample harvest-season runoff.","code":""},{"path":"/reference/usgs.herbicides.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"Scribner, E.., Battaglin, W.., Dietze, J.E., Thurman, E.M.,   \"Reconnaissance Data Glyphosate, Selected Herbicides, Degradation Products, Antibiotics 51 streams Nine Midwestern States, 2002\".   U.S. Geological Survey Open File Report 03-217.   Herbicide data table 5, page 30-37. Site coordinates page 7-8.   https://ks.water.usgs.gov/pubs/reports/ofr.03-217.html","code":""},{"path":"/reference/usgs.herbicides.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"None.","code":""},{"path":"/reference/usgs.herbicides.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Concentrations of herbicides in streams in the United States — usgs.herbicides","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(usgs.herbicides)   dat <- usgs.herbicides       libs(NADA)   # create censored data for one trait   dat$y <- as.numeric(dat$atrazine)   dat$ycen <- is.na(dat$y)   dat$y[is.na(dat$y)] <- .05      # percent censored   with(dat, censummary(y, censored=ycen))   # median/mean   with(dat, cenmle(y, ycen, dist=\"lognormal\"))   # boxplot   with(dat, cenboxplot(obs=y, cen=ycen, log=FALSE,                        main=\"usgs.herbicides\"))   # with(dat, boxplot(y))   pp <- with(dat, ros(obs=y, censored=ycen, forwardT=\"log\")) # default lognormal   plot(pp)     plotfun <- function(vv){     dat$y <- as.numeric(dat[[vv]])     dat$ycen <- is.na(dat$y)     dat$y[is.na(dat$y)] <- .01     # qqnorm(log(dat$y), main=vv) # ordinary qq plot shows censored values     pp <- with(dat, ros(obs=y, censored=ycen, forwardT=\"log\"))     plot(pp, main=vv) # omits censored values   }   op <- par(mfrow=c(3,3))   vnames <- c(\"acetochlor\", \"alachlor\", \"ametryn\", \"atrazine\",\"CIAT\", \"CEAT\", \"cyanazine\", #\"CAM\",               \"dimethenamid\", \"flufenacet\")   for(vv in vnames) plotfun(vv)   par(op)    } # }"},{"path":"/reference/vaneeuwijk.drymatter.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"Multi-environment trial maize, dry matter content","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"","code":"data(\"vaneeuwijk.drymatter\")"},{"path":"/reference/vaneeuwijk.drymatter.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"data frame 168 observations following 5 variables. year year site site, 4 levels variety variety, 6 levels y dry matter percent","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"Percent dry matter given. Site codes soil type classifications:   SS=Southern Sand, CS=Central Sand, NS=Northern Sand, RC=River Clay. data balanced subset data analyzed   van Eeuwijk, Keizer, Bakker (1995b)   Kroonenberg, Basford, Ebskamp (1995). Used permission Fred van Eeuwijk.","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"van Eeuwijk, Fred . Pieter M. Kroonenberg (1998).   Multiplicative Models Interaction Three-Way ANOVA, Applications Plant Breeding   Biometrics, 54, 1315-1333.   https://doi.org/10.2307/2533660","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"Kroonenberg, P.M., Basford, K.E. & Ebskamp, .G.M. (1995).   Three-way cluster component analysis maize variety trials.   Euphytica, 84(1):31-42.   https://doi.org/10.1007/BF01677554 van Eeuwijk, F.., Keizer, L.C.P. & Bakker, J.J. Van Eeuwijk. (1995b).   Linear bilinear models analysis multi-environment trials:   II. application data Dutch Maize Variety Trials   Euphytica, 84(1):9-22.   https://doi.org/10.1007/BF01677552 Hardeo Sahai, Mario M. Ojeda.   Analysis Variance Random Models, Volume 1. Page 261.","code":""},{"path":"/reference/vaneeuwijk.drymatter.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of maize, dry matter content — vaneeuwijk.drymatter","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(vaneeuwijk.drymatter)   dat <- vaneeuwijk.drymatter   dat <- transform(dat, year=factor(year))   dat <- transform(dat, env=factor(paste(year,site)))    libs(HH)   HH::interaction2wt(y ~ year+site+variety,dat,rot=c(90,0),                      x.between=0, y.between=0,                      main=\"vaneeuwijk.drymatter\")       # anova model   m1 <- aov(y ~ variety+env+variety:env, data=dat)   anova(m1) # Similar to VanEeuwijk table 2   m2 <- aov(y ~ year*site*variety, data=dat)   anova(m2) # matches Sahai table 5.5      # variance components model   libs(lme4)   libs(lucid)   m3 <- lmer(y ~ (1|year) + (1|site) + (1|variety) +                (1|year:site) + (1|year:variety) + (1|site:variety),              data=dat)   vc(m3) # matches Sahai page 266   ##          grp        var1 var2    vcov  sdcor   ## year:variety (Intercept) <NA> 0.3187  0.5645   ##    year:site (Intercept) <NA> 7.735   2.781    ## site:variety (Intercept) <NA> 0.03502 0.1871   ##         year (Intercept) <NA> 6.272   2.504    ##      variety (Intercept) <NA> 0.4867  0.6976   ##         site (Intercept) <NA> 6.504   2.55     ##     Residual        <NA> <NA> 0.8885  0.9426    } # }"},{"path":"/reference/vaneeuwijk.fusarium.html","id":null,"dir":"Reference","previous_headings":"","what":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"Infection wheat varieties Fusarium strains 1990 1993","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"","code":"data(\"vaneeuwijk.fusarium\")"},{"path":"/reference/vaneeuwijk.fusarium.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"data frame 560 observations following 4 variables. year year, 1990-1993 strain strain fusarium gen genotype/variety y","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"Data come Hungary. 20 wheat varieties infected 7   strains Fusarium years 1990-1993.  measured value   rating severity disease due Fusarium head blight,   expressed number 1-100. Three-way interactions varieties 21 23 ones   1992 suffering strain infections.  due incorrect   storage innoculum (strain) rendered incapable   infecting varieties. data subset data analyzed VanEeuwijk et al. 1995. Used permission Fred van Eeuwijk.","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"van Eeuwijk, Fred . Pieter M. Kroonenberg (1998).   Multiplicative Models Interaction Three-Way ANOVA, Applications Plant Breeding   Biometrics, 54, 1315-1333.   https://doi.org/10.2307/2533660","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"F. . van Eeuwijk, . Mesterhazy, Ch. . Kling, P. Ruckenbauer,   L. Saur, H. Burstmayr, M. Lemmens, L. C. P. Keizer, N. Maurin,   C. H. . Snijders. (1995).   Assessing non-specificity resistance wheat head blight caused   inoculation European strains Fusarium culmorum,   F. graminearum F. nivale using multiplicative model   interaction.   Theor Appl Genet. 90(2), 221-8.   https://doi.org/10.1007/BF00222205","code":""},{"path":"/reference/vaneeuwijk.fusarium.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Infection of wheat varieties by Fusarium strains from 1990 to 1993 — vaneeuwijk.fusarium","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(vaneeuwijk.fusarium)   dat <- vaneeuwijk.fusarium   dat <- transform(dat, year=factor(year))   dat <- transform(dat, logity=log((y/100)/(1-y/100)))    libs(HH)   position(dat$year) <- c(3,9,14,19)   position(dat$strain) <- c(2,5,8,11,14,17,20)   HH::interaction2wt(logity ~ gen+year+strain,dat,rot=c(90,0),                      x.between=0, y.between=0,                      main=\"vaneeuwijk.fusarium\")     # anova on logit scale. Near match to VanEeuwijk table 6   m1 <- aov(logity ~ gen*strain*year, data=dat)   anova(m1)   ## Response: logity   ##                  Df Sum Sq Mean Sq F value Pr(>F)   ## gen              19 157.55   8.292                  ## strain            6  91.54  15.256                  ## year              3 321.99 107.331                  ## gen:strain      114  34.03   0.299                  ## gen:year         57 140.94   2.473                  ## strain:year      18 236.95  13.164                  ## gen:strain:year 342  93.15   0.272    } # }"},{"path":"/reference/vaneeuwijk.nematodes.html","id":null,"dir":"Reference","previous_headings":"","what":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"number cysts 11 potato genotypes 5 potato cyst nematode   populations.","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"","code":"data(\"vaneeuwijk.nematodes\")"},{"path":"/reference/vaneeuwijk.nematodes.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"data frame 55 observations following 3 variables. gen potato genotype pop nematode population y number cysts","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"number cysts 11 potato genotypes 5 potato cyst nematode   populations belonging species Globodera pallida.    part larger table . numbers means four   five replicates. Van Eeuwijk used data illustrate fitting generalized linear   model.","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"Fred . van Eeuwijk, (1995).   Multiplicative Interaction Generalized Linear Models.   Biometrics, 51, 1017-1032.   https://doi.org/10.2307/2533001","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"Arntzen, F.K. & van Eeuwijk (1992).   Variation resistance level potato genotypes virulence level   potato cyst nematode populations.   Euphytica, 62, 135-143.   https://doi.org/10.1007/BF00037939","code":""},{"path":"/reference/vaneeuwijk.nematodes.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Number of cysts on 11 potato genotypes for 5 potato cyst nematode populations. — vaneeuwijk.nematodes","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(vaneeuwijk.nematodes) dat <- vaneeuwijk.nematodes  # show non-normality op <- par(mfrow=c(2,1), mar=c(5,4,3,2)) boxplot(y ~ pop, data=dat, las=2,         ylab=\"number of cysts\") title(\"vaneeuwijk.nematodes - cysts per nematode pop\") boxplot(y ~ gen, data=dat, las=2) title(\"vaneeuwijk.nematodes - cysts per potato\") par(op)    # normal distribution   lm1 <- lm(y ~ gen + pop, data=dat)    # poisson distribution   glm1 <- glm(y ~ gen+pop,data=dat,family=quasipoisson(link=log))   anova(glm1)    libs(gnm)    # main-effects non-interaction model   gnm0 <- gnm(y ~ pop + gen, data=dat,               family=quasipoisson(link=log))   # one interaction   gnm1 <- gnm(y ~ pop + gen + Mult(pop,gen,inst=1), data=dat,               family=quasipoisson(link=log))   # two interactions   gnm2 <- gnm(y ~ pop + gen + Mult(pop,gen,inst=1) + Mult(pop,gen,inst=2),               data=dat,               family=quasipoisson(link=log))    # anova(gnm0, gnm1, gnm2, test=\"F\")   # only 2, not 3 axes needed    # match vaneeuwijk table 2   # anova(gnm2)   ##                          Df Deviance Resid. Df Resid. Dev   ## NULL                                        54     8947.4   ## pop                       4    690.6        50     8256.8   ## gen                      10   7111.4        40     1145.4   ## Mult(pop, gen, inst = 1) 13    716.0        27      429.4   ## Mult(pop, gen, inst = 2) 11    351.1        16       78.3    # compare residual qq plots from models   op <- par(mfrow=c(2,2))   plot(lm1, which=2, main=\"LM\")   plot(glm1, which=2, main=\"GLM\")   plot(gnm0, which=2, main=\"GNM, no interaction\")   plot(gnm2, which=2, main=\"GNM, 2 interactions\")   par(op)    # extract interaction-term coefficients, make a biplot   pops <- pickCoef(gnm2, \"[.]pop\")   gens <- pickCoef(gnm2, \"[.]gen\")   coefs <- coef(gnm2)   A <- matrix(coefs[pops], nc = 2)   B <- matrix(coefs[gens], nc = 2)   A2=scale(A)   B2=scale(B)   rownames(A2) <- levels(dat$pop)   rownames(B2) <- levels(dat$gen)   # near-match with vaneeuwijk figure 1   biplot(A2,B2, expand=2.5,xlim=c(-2,2),ylim=c(-2,2),          main=\"vaneeuwijk.nematodes - GAMMI biplot\")  } # }"},{"path":"/reference/vargas.txe.html","id":null,"dir":"Reference","previous_headings":"","what":"Treatment x environment interaction in agronomy trials — vargas.txe","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"Treatment x environment interaction agronomy trials","code":""},{"path":"/reference/vargas.txe.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"","code":"data(\"vargas.txe.covs\") data(\"vargas.txe.yield\")"},{"path":"/reference/vargas.txe.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"'vargas.txe.covs' data 10 years measurements 28   environmental covariates: year year MTD mean maximum temperature December MTJ mean maximum temperature January MTF mean maximum temperature February MTM mean maximum temperature March MTA mean maximum temperature April mTD mean minimum temperature December mTJ mean minimum temperature January mTF mean minimum temperature February mTM mean minimum temperature March mTA mean minimum temperature April mTUD mean minimum temperature December mTUJ mean minimum temperature January mTUF mean minimum temperature February mTUM mean minimum temperature March mTUA mean minimum temperature April PRD total monthly precipitation December PRJ total monthly precipitation Jan PRF total monthly precipitation Feb PRM total monthly precipitation Mar SHD sun hours per day Dec SHJ sun hours per day Jan SHF sun hours per day Feb EVD total monthly evaporation Dec EVJ total monthly evaporation Jan EVF total monthly evaporation Feb EVM total monthly evaporation Mar EVA total monthly evaporation Apr 'vargas.txe.yield' dataframe contains 240 observations   three variables year Year trt Treatment. See details section yield Grain yield, kg/ha","code":""},{"path":"/reference/vargas.txe.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"treatment names indicate: Used permission Jose Crossa.","code":""},{"path":"/reference/vargas.txe.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"Vargas, Mateo Crossa, Jose van Eeuwijk, Fred Sayre,   Kenneth D. Reynolds, Matthew P. (2001).   Interpreting Treatment x Environment Interaction Agronomy Trials.   Agron. J., 93, 949-960.  Table A1, A3.   https://doi.org/10.2134/agronj2001.934949x","code":""},{"path":"/reference/vargas.txe.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Treatment x environment interaction in agronomy trials — vargas.txe","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(vargas.txe.covs)   data(vargas.txe.yield)      libs(reshape2)   libs(lattice)   redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\"))   Z <- vargas.txe.yield   Z <- acast(Z, year ~ trt, value.var='yield')   levelplot(Z, col.regions=redblue,             main=\"vargas.txe.yield\", xlab=\"year\", ylab=\"treatment\",             scales=list(x=list(rot=90)))      # Double-centered like AMMI   Z <- sweep(Z, 1, rowMeans(Z))   Z <- sweep(Z, 2, colMeans(Z))   # Vargas figure 1   biplot(prcomp(Z, scale.=FALSE), main=\"vargas.txe.yield\")    # Now, PLS relating the two matrices   U <- vargas.txe.covs   U <- scale(U) # Standardized covariates   libs(pls)   m1 <- plsr(Z~U)   # Vargas Fig 2, flipped vertical/horizontal   biplot(m1, which=\"x\", var.axes=TRUE)  } # }"},{"path":"/reference/vargas.wheat1.html","id":null,"dir":"Reference","previous_headings":"","what":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"Yield Durum wheat, 7 genotypes, 6 years, 16 genotypic variates   16 environment variates.","code":""},{"path":"/reference/vargas.wheat1.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"","code":"data(\"vargas.wheat1.covs\") data(\"vargas.wheat1.traits\")"},{"path":"/reference/vargas.wheat1.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"vargas.wheat1.covs dataframe 6 observations following 17 variables. year year, 1990-1995 MTD Mean daily max temperature December, deg C MTJ Mean max January MTF Mean max February MTM Mean max March mTD Mean daily minimum temperature December, deg C mTJ Mean min January mTF Mean min February mTM Mean min March PRD Monthly precipitation December, mm PRJ Precipitation January PRF Precipitation February PRM Precipitation March SHD Sun hours December SHJ Sun hours January SHF Sun hours February SHM Sun hours March vargas.wheat1.traits dataframe 126 observations following 19 variables. year year, 1990-1995 rep replicate, 3 levels gen genotype, 7 levels yield yield, kg/ha ANT anthesis, days emergence MAT maturity, days emergence GFI grainfill, MAT-ANT PLH plant height, cm BIO biomass ground, kg/ha HID harvest index STW straw yield, kg/ha NSM spikes / m^2 NGM grains / m^2 NGS grains per spike TKW thousand kernel weight, g WTI weight per tiller, g SGW spike grain weight, g VGR vegetative growth rate, kg/ha/day, STW/ANT KGR kernel growth rate, mg/kernel/day","code":""},{"path":"/reference/vargas.wheat1.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"Conducted Ciudad Obregon, Mexico.","code":""},{"path":"/reference/vargas.wheat1.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"Mateo Vargas Jose Crossa Ken Sayre Matthew Renolds   Martha E Ramirez Mike Talbot, 1998.   Interpreting Genotype x Environment Interaction Wheat   Partial Least Squares Regression.   Crop Science, 38, 679-689.   https://doi.org/10.2135/cropsci1998.0011183X003800030010x Data provided Jose Crossa.","code":""},{"path":"/reference/vargas.wheat1.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Wheat yields in 7 years with genetic and environment covariates — vargas.wheat1","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)   data(vargas.wheat1.covs)   data(vargas.wheat1.traits)    libs(pls)   libs(reshape2)    # Yield as a function of non-yield traits   Y0 <- vargas.wheat1.traits[,c('gen','rep','year','yield')]   Y0 <- acast(Y0, gen ~ year, value.var='yield', fun=mean)   Y0 <- sweep(Y0, 1, rowMeans(Y0))   Y0 <- sweep(Y0, 2, colMeans(Y0)) # GxE residuals   Y1 <- scale(Y0) # scaled columns   X1 <- vargas.wheat1.traits[, -4] # omit yield   X1 <- aggregate(cbind(ANT,MAT,GFI,PLH,BIO,HID,STW,NSM,NGM,                         NGS,TKW,WTI,SGW,VGR,KGR) ~ gen, data=X1, FUN=mean)   rownames(X1) <- X1$gen   X1$gen <- NULL   X1 <- scale(X1) # scaled columns   m1 <- plsr(Y1~X1)   loadings(m1)[,1,drop=FALSE] # X loadings in Table 1 of Vargas    biplot(m1, cex=.5, which=\"x\", var.axes=TRUE,          main=\"vargas.wheat1 - gen ~ trait\") # Vargas figure 2a    # Yield as a function of environment covariates   Y2 <- t(Y0)   X2 <- vargas.wheat1.covs   rownames(X2) <- X2$year   X2$year <- NULL   Y2 <- scale(Y2)   X2 <- scale(X2)    m2 <- plsr(Y2~X2)   loadings(m2)[,1,drop=FALSE] # X loadings in Table 2 of Vargas } # }"},{"path":"/reference/vargas.wheat2.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"yield 8 wheat genotypes measured 21 low-humidity   environments.  environment 13 covariates recorded.","code":""},{"path":"/reference/vargas.wheat2.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"","code":"data(\"vargas.wheat2.covs\") data(\"vargas.wheat2.yield\")"},{"path":"/reference/vargas.wheat2.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"'vargas.wheat2.covs' data frame 21 observations following 14 variables. env environment CYC length growth cycle days mTC mean daily minimum temperature degrees Celsius MTC mean daily maximum temperature SHC sun hours per day mTV mean daily minimum temp vegetative stage MTV mean daily maximum temp vegetative stage SHV sun hours per day vegetative stage mTS mean daily minimum temp spike growth stage MTS mean daily maximum temp spike growth stage SHS sun hours per day spike growth stage mTG mean daily minimum temp grainfill stage MTG mean daily maximum temp grainfill stage SHG sun hours per day grainfill stage 'vargas.wheat2.yield' data frame 168 observations following 3 variables. env environment gen genotype yield yield (kg/ha)","code":""},{"path":"/reference/vargas.wheat2.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"Grain yields (kg/ha) 8 wheat genotypes 21 low-humidity   environments grown 1990-1994. data environment-centered   genotype-centered. rows columns GxE matrix   mean zero. locations experiments :","code":""},{"path":"/reference/vargas.wheat2.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"Mateo Vargas Jose Crossa Ken Sayre Matthew Renolds   Martha E Ramirez Mike Talbot, 1998.   Interpreting Genotype x Environment Interaction Wheat   Partial Least Squares Regression, Crop Science, 38, 679–689.   https://doi.org/10.2135/cropsci1998.0011183X003800030010x Data provided Jose Crossa.","code":""},{"path":"/reference/vargas.wheat2.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of wheat with environmental covariates — vargas.wheat2","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   libs(pls,reshape2)      data(vargas.wheat2.covs)   datc <- vargas.wheat2.covs    data(vargas.wheat2.yield)   daty <- vargas.wheat2.yield    # Cast to matrix   daty <- acast(daty, env ~ gen, value.var='yield')   rownames(datc) <- datc$env   datc$env <- NULL      # The pls package centers, but does not (by default) use scaled covariates   # Vargas says you should   # daty <- scale(daty)   datc <- scale(datc)    m2 <- plsr(daty ~ datc)    # Plot predicted vs observed for each genotype using all components   plot(m2)    # Loadings   # plot(m2, \"loadings\", xaxt='n')   # axis(1, at=1:ncol(datc), labels=colnames(datc), las=2)    # Biplots   biplot(m2, cex=.5, which=\"y\", var.axes=TRUE,          main=\"vargas.wheat2 - daty ~ datc\") # Vargas figure 2a   biplot(m2, cex=.5, which=\"x\", var.axes=TRUE) # Vectors form figure 2 b   # biplot(m2, cex=.5, which=\"scores\", var.axes=TRUE)   # biplot(m2, cex=.5, which=\"loadings\", var.axes=TRUE)    } # }"},{"path":"/reference/verbyla.lupin.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"Yield 9 varieties lupin different planting densities across   2 years multiple locations.","code":""},{"path":"/reference/verbyla.lupin.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"gen genotype, 9 varieties site site, 11 levels rep rep, 2-3 levels rate seeding rate plants/m^2 row row col column serp factor 4 levels serpentine seeding effect linrow centered row position numeric variate (row-8.5)/10 lincol centered column position numeric variate (col-3.5) linrate linear effect seedrate, scaled (seedrate-41.92958)/10 yield yield tons/hectare year year, 1991-1992 loc location","code":""},{"path":"/reference/verbyla.lupin.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"Nine varieties lupin tested yield response plant density   11 sites.  target density 1991 10, 20, ..., 60 plants per   m^2, 1992 20, 30, ..., 70 plants per m^2. Plot dimensions given. variety Myallie grown 1992. site 2 reps 1991 3 reps   1992.  rep laid factorial RCB design; one randomization   used sites 1991 one (different) randomization used   sites 1992.  (confirmed principal   investigator.) 1991 Mt. Barker location, data columns   5 6 discarded due problems weeds. Variety 'Myallie' called '84L:439' Verbyla 1997. year release varieties  Data retrieved Oct 2010 https://www.blackwellpublishers.co.uk/rss.   (longer available). Used permission Blackwell Publishing.","code":""},{"path":"/reference/verbyla.lupin.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"Arunas P. Verbyla Brian R. Cullis Michael G. Kenward   Sue J. Welham, (1999).   analysis designed experiments longitudinal data using   smoothing splines.   Appl. Statist., 48, 269–311.   https://doi.org/10.1111/1467-9876.00154 Arunas P. Verbyla Brian R. Cullis Michael G. Kenward   Sue J. Welham, (1997).   analysis designed experiments longitudinal data using   smoothing splines.   University Adelaide, Department Statistics, Research Report   97/4.   https://https://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.56.808","code":""},{"path":"/reference/verbyla.lupin.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of lupin, multiple varieties and densities — verbyla.lupin","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(verbyla.lupin)   dat <- verbyla.lupin    # The same RCB randomization was used at all sites in each year   libs(desplot)   desplot(dat, gen~col+row|site,           out1=rep, num=rate,           # aspect unknown           main=\"verbyla.lupin - experiment design\")     # Figure 3 of Verbyla   libs(lattice)   foo <- xyplot(yield ~ rate|loc*gen, data=dat, subset=year==92,                 type=c('p','smooth'), cex=.5,                 main=\"verbyla.lupin: 1992 yield response curves\",                 xlab=\"Seed rate (plants/m^2)\",                 ylab=\"Yield (tons/ha)\",                 strip=strip.custom(par.strip.text=list(cex=.7)))    libs(latticeExtra) # for useOuterStrips   useOuterStrips(foo,                  strip=strip.custom(par.strip.text=list(cex=.7)),                  strip.left=strip.custom(par.strip.text=list(cex=.7)))     # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)          # We try to reproduce the analysis of Verbyla 1999.     # May not be exactly the same, but is pretty close.        # Check nlevels for size of random-coefficient structures     # length(with(dat, table(gen)))      # 9 varieties for RC1     # length(with(dat, table(gen,site))) # 99 site:gen combinations for RC2          # Make row and col into factors     dat <- transform(dat, colf=factor(col), rowf=factor(row))     # sort for asreml     dat <- dat[order(dat$site, dat$rowf, dat$colf),]          # Make site names more useful for plots     # dat <- transform(dat, site=factor(paste0(year,\".\",substring(loc,1,4))))          # Initial model from top of Verbyla table 9.     m0 <- asreml(yield ~ 1                  + site                  + linrate                  + site:linrate,                  data = dat,                  random = ~ spl(rate)                  + dev(rate)                  + site:spl(rate)                  + site:dev(rate)                  + str(~gen+gen:linrate, ~us(2):id(9)) # RC1                  + gen:spl(rate)                  + gen:dev(rate)                  + str(~site:gen+site:gen:linrate, ~us(2):id(99)) # RC2                  + site:gen:spl(rate)                  + site:gen:dev(rate),                  residual = ~ dsum( ~ ar1(rowf):ar1(colf)|site) # Spatial AR1 x AR1                  )     m0 <- update(m0)     m0 <- update(m0)     m0 <- update(m0)     m0 <- update(m0)     m0 <- update(m0)      # Variograms match Verbyla 1999 figure 7 (scale slightly different)     plot(varioGram(m0), xlim=c(1:19), zlim=c(0,2),          main=\"verbyla.lupin - variogram by site\")          # Sequence of models in Verbyla 1999 table 10     m1 <- update(m0, fixed= ~ .                  + at(site, c(2,5,6,8,9,10)):lincol                  + at(site, c(3,5,7,8)):linrow                  + at(site, c(2,3,5,7,8,9,11)):serp                , random = ~ .                  + at(site, c(3,6,7,9)):rowf                  + at(site, c(1,2,3,9,10)):colf                  + at(site, c(5,7,8,10)):units)     m1 <- update(m1)          m2 <- update(m1,                  random = ~ .                  - site:gen:spl(rate) - site:gen:dev(rate))          m3 <- update(m2,                  random = ~ .                  - site:dev(rate) - gen:dev(rate))          m4 <- update(m3,                  random = ~ .                  - dev(rate))          m5 <- update(m4,                  random = ~ .                  - at(site, c(5,7,8,10)):units + at(site, c(5,7,8)):units)          # Variance components are a pretty good match to Verbyla 1997, table 15     libs(lucid)     vc(m5)     .001004/sqrt(.005446*.0003662) # .711 correlation for RC1     .00175/sqrt(.01881*.000167) # .987 correlation for RC2          # Matches Verbyla 1999 figure 5     plot(varioGram(m5),          main=\"verbyla.lupin - final model variograms\",          xlim=c(1:19), zlim=c(0,1.5))   }    } # }"},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of rice — vishnaadevi.rice.uniformity","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"Uniformity trial rice Madurai, India.","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"","code":"data(\"vishnaadevi.rice.uniformity\")"},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"data frame 288 observations following 3 variables. row row ordinate col column ordinate yield yield per plot, grams","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"uniformity trial rice raised 2017 late samba season near   Madurai, India. Note: clear outlier value '685'.   outlier included, calculated value CV matches   value Vishnaadevi et al.   remove outlier, CV smaller value   paper.   means outlier value simple typo   publication, actual value original data. Field width: 12 columns x 1m = 12 m Field length: 24 rows x 1m = 24m","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"Vishnaadevi, S.; K. Prabakaran, E. Subramanian, P. Arunachalam. (2019).   Determination fertility gradient direction optimum plot shape paddy crop Madurai District.   Green Farming, 10, 155-159.   https://www.researchgate.net/publication/333892867","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"None","code":""},{"path":"/reference/vishnaadevi.rice.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of rice — vishnaadevi.rice.uniformity","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(vishnaadevi.rice.uniformity)   dat <-vishnaadevi.rice.uniformity    # CV in Table 2 for 1x1 is reported as 2.8   # sd(dat$yield)/mean(dat$yield) = .0277   # If we remove the outlier yield 685, then we calculate .0256   libs(desplot)   desplot(dat, yield ~ col*row,           flip=TRUE, aspect=24/12,           main=\"vishnaadevi.rice.uniformity\") } # }"},{"path":"/reference/vold.longterm.html","id":null,"dir":"Reference","previous_headings":"","what":"Long-term barley yields at different fertilizer levels — vold.longterm","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Long-term barley yields different fertilizer levels","code":""},{"path":"/reference/vold.longterm.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"","code":"data(\"vold.longterm\")"},{"path":"/reference/vold.longterm.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"data frame 76 observations following 3 variables. year year nitro nitrogen fertilizer, grams/m^2 yield yield, grams/m^2","code":""},{"path":"/reference/vold.longterm.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Trials conducted Osaker, Norway.   Nitrogen fertilizer amounts increased twenty percent 1978. Vold (1998) fit Michaelis-Menten type equation different   maximum year decreasing covariate non-fertilizer   nitrogen. Miguez used non-linear mixed effects model asymptotic curve.","code":""},{"path":"/reference/vold.longterm.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Arild Vold (1998).   generalization ordinary yield response functions.   Ecological modelling, 108, 227-236.   https://doi.org/10.1016/S0304-3800(98)00031-3","code":""},{"path":"/reference/vold.longterm.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"Fernando E. Miguez (2008).   Using Non-Linear Mixed Models Agricultural Data.","code":""},{"path":"/reference/vold.longterm.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Long-term barley yields at different fertilizer levels — vold.longterm","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(vold.longterm)   dat <- vold.longterm      libs(lattice)   foo1 <- xyplot(yield ~ nitro | factor(year), data = dat,                  as.table=TRUE, type = \"o\",                  main=list(\"vold.longterm\", cex=1.5),                  xlab = list(\"N fertilizer\",cex=1.5,font=4),                  ylab = list(\"Yield\", cex=1.5))       # Long term trend shows decreasing yields   xyplot(yield ~ year , data = dat, group=nitro, type='o',          main=\"vold.longterm - yield level by nitrogen\",          auto.key=list(columns=4))     if(0){   # Global model   m1.nls <- nls(yield ~ SSasymp(nitro, max, int, lograte), data=dat)   summary(m1.nls)   libs(MASS) # for 'confint'   confint(m1.nls)      # Raw data plus global model.  Year variation not modeled.   pdat <- data.frame(nitro=seq(0,14,0.5))   pdat$pred <- predict(m1.nls, newdata=pdat)     libs(latticeExtra) # for layers     foo1 + xyplot(pred ~ nitro , data = pdat,                   as.table=TRUE, type='l', col='red', lwd=2)   }    # Separate fit for each year.  Overfitting with 3x19=57 params.   libs(nlme)   m2.lis <- nlsList(yield ~ SSasymp(nitro,max,int,lograte) | year, data=dat)   plot(intervals(m2.lis),layout = c(3,1),        main=\"vold.longterm\") # lograte might be same for each year     # Fixed overall asymptotic model, plus random deviations for each year   # Simpler code, but less clear about what model is fit: m3.lme <- nlme(m2.lis)   libs(nlme)   m3.lme <- nlme(yield ~ SSasymp(nitro, max, int, lograte), data=dat,                  groups = ~ year,                  fixed = list(max~1, int~1, lograte~1),                  random= max + int + lograte ~ 1,                  start= c(max=300, int=100, rate=-2))      ## # Fixed effects are similar for the nls/lme models   ## coef(m1.nls)   ## fixef(m3.lme)   ## # Random effects are normally distributed   ## qqnorm(m3.lme, ~ ranef(.),col=\"black\")   ## # Note the trend in intercept effects over time   ## plot(ranef(m3.lme),layout=c(3,1))      ## # Correlation between int,lograte int,max may not be needed   ## intervals(m3.lme,which=\"var-cov\")   ## pairs(m3.lme,pch=19,col=\"black\")      ## # Model with int uncorrelated with max,lograte.  AIC is worse.   ## # fit4.lm3 <- update(m3.lme, random=pdBlocked(list(max+lograte~1,int ~ 1)))   ## # intervals(fit4.lm3, which=\"var-cov\")   ## # anova(m3.lme, fit4.lm3)      # Plot the random-effect model.  Excellent fit with few parameters.   pdat2 <- expand.grid(year=1970:1988, nitro=seq(0,15,length=50))   pdat2$pred <- predict(m3.lme, new=pdat2)   pdat2$predf <- predict(m3.lme, new=pdat2, level=0)   foo1 <- update(foo1, type='p',                  key=simpleKey(c(\"Observed\",\"Fixed\",\"Random\"),                                col=c(\"blue\",\"red\",\"darkgreen\"),                                points=FALSE, columns=3))   libs(latticeExtra)   foo2 <- xyplot(pred~nitro|year, data=pdat2, type='l', col=\"darkgreen\", lwd=2)   foo3 <- xyplot(predf~nitro|year, data=pdat2, type='l', col=\"red\",lwd=1)   foo1 + foo2 + foo3       ## # Income is maximized at about 15   ## pdat2 <- transform(pdat2, income = predf*2 - 7*nitro)   ## with(pdat2, xyplot(income~nitro)) } # }"},{"path":"/reference/vsn.lupin3.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"Early generation lupin trial 3 sites, 330 test lines, 6 check lines.","code":""},{"path":"/reference/vsn.lupin3.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"data frame 1236 observations following 5 variables. site site, levels S1 S2 S3 col column row row gen genotype yield yield","code":""},{"path":"/reference/vsn.lupin3.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"early-stage multi-environment trial, 6 check lines 300   test lines.  6 check lines replicated environment. Used permission Arthur Gilmour, Brian Cullis, Robin Thompson.","code":""},{"path":"/reference/vsn.lupin3.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"Multi-Environment Trials - Lupins.   https://www.vsni.co.uk/software/asreml/htmlhelp/asreml/xlupin.htm","code":""},{"path":"/reference/vsn.lupin3.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of lupin, early generation trial — vsn.lupin3","text":"","code":"if (FALSE) { # \\dontrun{      library(agridat)   data(vsn.lupin3)   dat <- vsn.lupin3      # Split gen into check/test, make factors   dat <- within(dat, {     check <- ifelse(gen>336, 0, gen)     check <- ifelse(check<7, check, 7)     check <- factor(check)     test <- factor(ifelse(gen>6 & gen<337, gen, 0))     gen=factor(gen)   })    libs(desplot)   desplot(dat, yield~ col*row|site,           # midpoint=\"midrange\",           # aspect unknown           main=\"vsn.lupin3 - yield\")   # Site 1 & 2 used same randomization   desplot(dat, check~ col*row|site,           main=\"vsn.lupin3: check plot placement\")     if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)           # Single-site analyses suggested random row term for site 3,     # random column terms for all sites,     # AR1 was unnecessary for the col dimension of site 3     dat <- transform(dat, colf=factor(col), rowf=factor(row))     dat <- dat[order(dat$site, dat$colf, dat$rowf),] # Sort for asreml     m1 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf + test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)                                    ) )     m1$loglik     ## [1] -314.2616          lucid::vc(m1)     ##                      effect component std.error z.ratio constr     ##  at(site, S1):colf!colf.var   0.6228   0.4284       1.5    pos     ##  at(site, S2):colf!colf.var   0.159    0.1139       1.4    pos     ##  at(site, S3):colf!colf.var   0.04832  0.02618      1.8    pos     ##  at(site, S3):rowf!rowf.var   0.0235   0.008483     2.8    pos     ##               test!test.var   0.1031   0.01468      7      pos     ##            site_S1!variance   2.771    0.314        8.8    pos     ##            site_S1!colf.cor   0.1959   0.05375      3.6  uncon     ##            site_S1!rowf.cor   0.6503   0.03873     17    uncon     ##            site_S2!variance   0.9926   0.1079       9.2    pos     ##            site_S2!colf.cor   0.2868   0.05246      5.5  uncon     ##            site_S2!rowf.cor   0.5744   0.0421      14    uncon     ##            site_S3!variance   0.1205   0.01875      6.4    pos     ##            site_S3!rowf.cor   0.6394   0.06323     10    uncon          # Add site:test     m2 <- update(m1, random=~. + site:test)     m2$loglik     ## [1] -310.8794          # CORUH structure on the site component of site:test     m3 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf + corh(site):test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)  ))     m3$loglik     ## [1] -288.4837          # Unstructured genetic variance matrix     m4 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf + us(site):test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)  ))     m4$loglik     ## [1] -286.8239        # Note that a 3x3 unstructured matrix can be written LL'+Psi with 1 factor L     # Explicitly fit the factor analytic model     m5 <- asreml(yield ~ site + check:site, data=dat,                  random = ~ at(site):colf + at(site,3):rowf                  + fa(site,1, init=c(.7,.1,.1,.5,.3,.2)):test,                  residual = ~ dsum( ~ ar1(colf):ar1(rowf) +                                       id(colf):ar1(rowf) | site,                                    levels=list(1:2, 3)  ))     m5$loglik # Same as m4     ## [1] -286.8484          # Model 4, Unstructured (symmetric) genetic variance matrix     un <- diag(3)     un[upper.tri(un,TRUE)] <- m4$vparameters[5:10]     round(un+t(un)-diag(diag(un)),3)     ##       [,1]  [,2]  [,3]     ## [1,] 0.992 0.158 0.132     ## [2,] 0.158 0.073 0.078     ## [3,] 0.132 0.078 0.122          # Model 5, FA matrix = LL'+Psi.  Not quite the same as unstructured,     # since the FA model fixes site 2 variance at 0.     psi <- diag(m5$vparameters[5:7])     lam <- matrix(m5$vparameters[8:10], ncol=1)     round(tcrossprod(lam,lam)+psi,3)     ##       [,1]  [,2]  [,3]     ## [1,] 0.991 0.156 0.133     ## [2,] 0.156 0.092 0.078     ## [3,] 0.133 0.078 0.122   }    } # }"},{"path":"/reference/wallace.iowaland.html","id":null,"dir":"Reference","previous_headings":"","what":"Iowa farmland values by county in 1925 — wallace.iowaland","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"Iowa farmland values county 1925","code":""},{"path":"/reference/wallace.iowaland.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"","code":"data(\"wallace.iowaland\")"},{"path":"/reference/wallace.iowaland.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"data frame 99 observations following 10 variables. county county factor, 99 levels fips FIPS code (state+county) lat latitude long longitude yield average corn yield per acre (bu) corn percent land corn grain percent land small grains untillable percent land untillable fedval land value (excluding buildings) per acre, 1925 federal census stval land value (excluding buildings) per acre, 1925 state census","code":""},{"path":"/reference/wallace.iowaland.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"None.","code":""},{"path":"/reference/wallace.iowaland.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"H.. Wallace (1926). Comparative Farm-Land Values Iowa.   Journal Land & Public Utility Economics, 2, 385-392.   Page 387-388.   https://doi.org/10.2307/3138610","code":""},{"path":"/reference/wallace.iowaland.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"Larry Winner. Spatial Data Analysis.   https://www.stat.ufl.edu/~winner/data/iowaland.txt","code":""},{"path":"/reference/wallace.iowaland.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Iowa farmland values by county in 1925 — wallace.iowaland","text":"","code":"library(agridat) data(wallace.iowaland) dat <- wallace.iowaland  # Interesting trends involving latitude libs(lattice) splom(~dat[,-c(1:2)], type=c('p','smooth'), lwd=2, main=\"wallace.iowaland\")   # Means. Similar to Wallace table 1 apply(dat[, c('yield','corn','grain','untillable','fedval')], 2, mean) #>      yield       corn      grain untillable     fedval  #>   39.11111   32.47475   21.55556   18.84848  118.67677   # Correlations.  Similar to Wallace table 2 round(cor(dat[, c('yield','corn','grain','untillable','fedval')]),2) #>            yield  corn grain untillable fedval #> yield       1.00  0.30  0.27      -0.16   0.61 #> corn        0.30  1.00  0.61      -0.82   0.81 #> grain       0.27  0.61  1.00      -0.59   0.62 #> untillable -0.16 -0.82 -0.59       1.00  -0.69 #> fedval      0.61  0.81  0.62      -0.69   1.00  m1 <- lm(fedval ~ yield + corn + grain + untillable, dat) summary(m1) # estimates similar to Wallace, top of p. 389 #>  #> Call: #> lm(formula = fedval ~ yield + corn + grain + untillable, data = dat) #>  #> Residuals: #>     Min      1Q  Median      3Q     Max  #> -36.392  -7.797  -0.110   6.068  31.778  #>  #> Coefficients: #>             Estimate Std. Error t value Pr(>|t|)     #> (Intercept) -64.7071    17.3420  -3.731 0.000326 *** #> yield         3.1488     0.3717   8.472 3.24e-13 *** #> corn          1.8175     0.3090   5.881 6.20e-08 *** #> grain         0.5394     0.2566   2.102 0.038229 *   #> untillable   -0.5527     0.2697  -2.049 0.043270 *   #> --- #> Signif. codes:  0 ‘***’ 0.001 ‘**’ 0.01 ‘*’ 0.05 ‘.’ 0.1 ‘ ’ 1 #>  #> Residual standard error: 11.61 on 94 degrees of freedom #> Multiple R-squared:  0.819,\tAdjusted R-squared:  0.8113  #> F-statistic: 106.3 on 4 and 94 DF,  p-value: < 2.2e-16 #>   # Choropleth map libs(maps) data(county.fips) dat <- transform(dat, polnm = paste0('iowa,',county)) # polnm example: iowa,adair  libs(\"latticeExtra\") # for mapplot redblue <- colorRampPalette(c(\"firebrick\", \"lightgray\", \"#375997\")) mapplot(polnm~fedval , data=dat, colramp=redblue,         main=\"wallace.iowaland - Federal land values\",         xlab=\"Land value, dollars per acre\",         scales=list(draw=FALSE),         map=map('county', 'iowa', plot=FALSE,           fill=TRUE, projection=\"mercator\")) #> Warning: 6 unmatched regions: iowa,blackhawk, iowa,buenavista, iowa,cerrogordo, iowa,d...."},{"path":"/reference/walsh.cottonprice.html","id":null,"dir":"Reference","previous_headings":"","what":"Acres and price of cotton 1910-1943 — walsh.cottonprice","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"Acres price cotton 1910-1943","code":""},{"path":"/reference/walsh.cottonprice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"data frame 34 observations following 9 variables. year year, numeric 1910-1943 acres acres cototn (1000s) cotton price per pound (cents) previous year cottonseed price per ton (dollars) previous year combined cotton price/pound + 1.857 x cottonseed price/pound (cents) index price index, 1911-1914=100 adjcotton adjusted cotton price per pound (cents) previous year adjcottonseed adjusted cottonseed price per ton (dollars) previous year adjcombined adjusted combined price/pound (cents)","code":""},{"path":"/reference/walsh.cottonprice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"'index' price index farm commodities.","code":""},{"path":"/reference/walsh.cottonprice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"R.M. Walsh (1944).   Response Price Production Cotton Cottonseed,   Journal Farm Economics, 26, 359-372.   https://doi.org/10.2307/1232237","code":""},{"path":"/reference/walsh.cottonprice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Acres and price of cotton 1910-1943 — walsh.cottonprice","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(walsh.cottonprice) dat <- walsh.cottonprice  dat <- transform(dat, acres=acres/1000) # convert to million acres  percentchg <- function(x){ # percent change from previous to current   ix <- 2:(nrow(dat))   c(NA, (x[ix]-x[ix-1])/x[ix-1]) }  # Compare percent change in acres with percent change in previous price # using constant dollars dat <- transform(dat, chga = percentchg(acres), chgp = percentchg(adjcombined))  with(dat, cor(chga, chgp, use='pair')) # .501 correlation libs(lattice) xyplot(chga~chgp, dat, type=c('p','r'),        main=\"walsh.cottonprice\",        xlab=\"Percent change in previous price\", ylab=\"Percent change in acres\") } # }"},{"path":"/reference/wassom.brome.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trials of bromegrass — wassom.brome.uniformity","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"Uniformity trials bromegrass Ames, Iowa, 1950-1951.","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"","code":"data(\"wassom.brome.uniformity\")"},{"path":"/reference/wassom.brome.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"data frame 1296 observations following 3 variables. expt experiment row row col column yield forage yield, pounds","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"Experiments conducted Ames, Iowa.  response variable   forage yield pounds green weight. Optimum plot size estimated 3.5 x 7.5 feet. Wassom Kalton used two different methods estimate optimum plot   size.   1. Relative efficiency different plot sizes.   2. Regression log variance yield vs log plot size. three Experiments: Experiment E1 broadcast seeded, harvested 1950. Experiment E2 row planted, harvested 1950. Experiment E3 broadcast seeded, harvested 1951.  field contained   mixture alfalfa brome equal proportions. plot 3.5 ft x 4 ft, orientation plot   clear. Field width: 36 plots Field length: 36 plots","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"Wassom R.R. Kalton. (1953).   Estimations Optimum Plot Size Using Data Bromegrass Uniformity   Trials. Agricultural Experiment Station, Iowa State College, Bulletin   396, page 314-319.   https://dr.lib.iastate.edu/handle/20.500.12876/62735   https://babel.hathitrust.org/cgi/pt?id=uiug.30112019570701&view=1up&seq=26&skin=2021","code":""},{"path":"/reference/wassom.brome.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trials of bromegrass — wassom.brome.uniformity","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(wassom.brome.uniformity)   dat <- wassom.brome.uniformity    libs(desplot)   desplot(dat, yield~col*row|expt,           flip=TRUE, aspect=1, # approximate aspect           main=\"wassom.brome.uniformity\")    } # }"},{"path":"/reference/waynick.soil.html","id":null,"dir":"Reference","previous_headings":"","what":"Soil nitrogen and carbon in two fields — waynick.soil","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"Soil nitrogen carbon two fields","code":""},{"path":"/reference/waynick.soil.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"data frame 200 observations following 6 variables. field field name, 2 levels sample sample number x x ordinate y y ordinate nitro nitrogen content, percent carbon carbon content, percent","code":""},{"path":"/reference/waynick.soil.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"Two fields studied, one University Farm Davis,   near Oakley.  Davis field silty clay loam, Oakley field   blow sand.","code":""},{"path":"/reference/waynick.soil.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"Waynick, Dean, Sharp, Leslie. (1918).   Variability soils significance past future soil investigations, -II.   University California press.   https://archive.org/details/variabilityinsoi45wayn","code":""},{"path":"/reference/waynick.soil.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soil nitrogen and carbon in two fields — waynick.soil","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(waynick.soil) dat <- waynick.soil  # Strong relationship between N,C libs(lattice) xyplot(nitro~carbon|field, data=dat, main=\"waynick.soil\")  # Spatial plot libs(sp, gstat) d1 <- subset(dat, field==\"Davis\") d2 <- subset(dat, field==\"Oakley\") coordinates(d1) <- data.frame(x=d1$x, y=d1$y) coordinates(d2) <- data.frame(x=d2$x, y=d2$y) spplot(d1, zcol = \"nitro\", cuts=8, cex = 1.6,        main = \"waynick.soil - Davis field - nitrogen\",        col.regions =  bpy.colors(8), key.space = \"right\")  # Variogram v1 <- gstat::variogram(nitro~1, data=d1) plot(v1, main=\"waynick.soil - Davis field - nitrogen\") # Maybe hasn't reached sill  } # }"},{"path":"/reference/wedderburn.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"Percent leaf area affected leaf blotch 10 varieties barley   9 sites.","code":""},{"path":"/reference/wedderburn.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"data frame 90 observations following 3 variables. y Percent leaf area affected, 0-100. site Site factor, 9 levels gen Variety factor, 10 levels","code":""},{"path":"/reference/wedderburn.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"Incidence Rhynchosporium secalis (leaf blotch) leaves   10 varieties barley grown 9 sites 1965.","code":""},{"path":"/reference/wedderburn.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"Wedderburn, R W M (1974).   Quasilikelihood functions, generalized linear models   Gauss-Newton method.   Biometrika, 61, 439–47.   https://doi.org/10.2307/2334725 Wedderburn credits original data unpublished thesis   J. F. Jenkyn.","code":""},{"path":"/reference/wedderburn.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"McCullagh, P Nelder, J (1989).   Generalized Linear Models (2nd ed). R. B. Millar.   Maximum Likelihood Estimation Inference: Examples R,     SAS ADMB.  Chapter 8.","code":""},{"path":"/reference/wedderburn.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley, percent of leaves affected by leaf blotch — wedderburn.barley","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(wedderburn.barley) dat <- wedderburn.barley dat$y <- dat$y/100  libs(lattice) dotplot(gen~y|site, dat, main=\"wedderburn.barley\")  # Use the variance function mu(1-mu).  McCullagh page 330 # Note, 'binomial' gives same results as 'quasibinomial', but also a warning m1 <- glm(y ~ gen + site, data=dat, family=\"quasibinomial\") summary(m1)  # Same shape (different scale) as McCullagh fig 9.1a plot(m1, which=1, main=\"wedderburn.barley\")  # Compare data and model dat$pbin <- predict(m1, type=\"response\") dotplot(gen~pbin+y|site, dat, main=\"wedderburn.barley: observed/predicted\")   # Wedderburn suggested variance function: mu^2 * (1-mu)^2 # Millar shows how to do this explicitly. wedder <- list(varfun=function(mu) (mu*(1-mu))^2,              validmu=function(mu) all(mu>0) && all(mu<1),              dev.resids=function(y,mu,wt) wt * ((y-mu)^2)/(mu*(1-mu))^2,              initialize=expression({                n <- rep.int(1, nobs)                mustart <- pmax(0.001, pmin(0.99,y)) }),              name=\"(mu(1-mu))^2\") m2 <- glm(y ~ gen + site, data=dat, family=quasi(link=\"logit\", variance=wedder)) #plot(m2)  # Alternatively, the 'gnm' package has the 'wedderburn' family. libs(gnm) m3 <- glm(y ~ gen + site, data=dat, family=\"wedderburn\") summary(m3) # Similar to McCullagh fig 9.2   plot(m3, which=1)   title(\"wedderburn.barley\")  # Compare data and model dat$pwed <- predict(m3, type=\"response\") dotplot(gen~pwed+y|site, dat, main=\"wedderburn.barley\") } # }"},{"path":"/reference/weiss.incblock.html","id":null,"dir":"Reference","previous_headings":"","what":"Soybean balanced incomplete block experiment — weiss.incblock","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"Soybean balanced incomplete block experiment","code":""},{"path":"/reference/weiss.incblock.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"","code":"data(\"weiss.incblock\")"},{"path":"/reference/weiss.incblock.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"data frame 186 observations following 5 variables. block block factor gen genotype (variety) factor yield yield (bu/ac) row row col column","code":""},{"path":"/reference/weiss.incblock.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"Grown Ames, Iowa 1937.  plot 6 feet 16 feet (2 rows,   3 feet apart).  Including space plots, entire experiment   252 ft x 96 feet (7 block * 6 plots * 6 feet = 252, 16*5 plots   plus 4 gaps 4 feet).  Weiss shows figure field (  later doubled dize via using two rows per plot). Note 30 varieties tested.  Varieties 7 14   variety (Mukden).  Although total yields varieties   equal, correction blocks adjusted means identical   values. accuracy , however, claimed constant   characteristic design. Field width: 96 feet Field length: 252 feet","code":""},{"path":"/reference/weiss.incblock.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"Weiss, Martin G. Cox, Gertrude M. (1939).   Balanced Incomplete Block Lattice Square Designs Testing Yield   Differences Among Large Numbers Soybean Varieties.   Agricultural Research Bulletins, Nos. 251-259.   https://lib.dr.iastate.edu/ag_researchbulletins/24/","code":""},{"path":"/reference/weiss.incblock.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Soybean balanced incomplete block experiment — weiss.incblock","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(weiss.incblock)   dat <- weiss.incblock    # True aspect as shown in Weiss and Cox   libs(desplot)   desplot(dat, yield~col*row,           text=gen, shorten='none', cex=.6, out1=block,           aspect=252/96, # true aspect           main=\"weiss.incblock\")       if(require(\"asreml\", quietly=TRUE)){     # Standard inc block analysis used by Weiss and Cox     libs(asreml)     m1 <- asreml(yield ~ gen + block , data=dat)     predict(m1, data=dat, classify=\"gen\")$pvals          ## gen pred.value std.error est.stat     ## G01     24.59    0.8312  Estimable     ## G02     26.92    0.8312  Estimable     ## G03     32.62    0.8312  Estimable     ## G04     26.97    0.8312  Estimable     ## G05     26.02    0.8312  Estimable   }  } # }"},{"path":"/reference/weiss.lattice.html","id":null,"dir":"Reference","previous_headings":"","what":"Lattice experiment in soybeans. — weiss.lattice","title":"Lattice experiment in soybeans. — weiss.lattice","text":"Lattice experiment soybeans.","code":""},{"path":"/reference/weiss.lattice.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Lattice experiment in soybeans. — weiss.lattice","text":"","code":"data(\"weiss.lattice\")"},{"path":"/reference/weiss.lattice.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Lattice experiment in soybeans. — weiss.lattice","text":"data frame 196 observations following 5 variables. yield yield (bu/ac) gen genotype factor, 49 levels rep rep factor, 4 levels col column row row","code":""},{"path":"/reference/weiss.lattice.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Lattice experiment in soybeans. — weiss.lattice","text":"Yield test 49 soybean varieties, grown Ames, IA, 1938. Plot dimensions 3x16 feeet. varieties compared variety 26 (Mukden). clear reps positioned field.  one hand, middle three columns rep/square higher yielding, giving appearance reps stacked top . hand, analysis Weiss uses 24 degrees freedom 4*(7-1) fit separate effect column rep (instead across reps).","code":""},{"path":"/reference/weiss.lattice.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Lattice experiment in soybeans. — weiss.lattice","text":"Weiss, Martin G. Cox, Gertrude M. (1939).  Balanced Incomplete Block Lattice Square Designs Testing Yield  Differences Among Large Numbers Soybean Varieties.  Table 5.  Agricultural Research Bulletins, Nos. 251-259.  https://lib.dr.iastate.edu/ag_researchbulletins/24/","code":""},{"path":"/reference/weiss.lattice.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Lattice experiment in soybeans. — weiss.lattice","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(weiss.lattice)   dat <- weiss.lattice    libs(desplot)   desplot(dat, yield~col*row|rep,           text=gen, shorten=\"none\", cex=.8, aspect=3/16, # true aspect           main=\"weiss.lattice (layout uncertain)\", xlab=\"Soybean yields\")     dat <- transform(dat, xf=factor(col), yf=factor(row))   m1 <- lm(terms(yield ~ rep + rep:xf + rep:yf + gen, keep.order=TRUE), data=dat)   anova(m1) # Matches Weiss table 7   ## Response: yield   ##           Df  Sum Sq Mean Sq F value    Pr(>F)   ## rep        3   91.57  30.525  4.7414 0.0039709 **   ## rep:xf    24 2913.43 121.393 18.8557 < 2.2e-16 ***   ## rep:yf    24  390.21  16.259  2.5254 0.0007734 ***   ## gen       48 1029.87  21.456  3.3327 2.652e-07 ***   ## Residuals 96  618.05   6.438      # ----------    if(require(\"asreml\", quietly=TRUE)){     libs(asreml)     m2 <- asreml(yield ~ rep + rep:xf + rep:yf + gen, data=dat)     # Weiss table 6 means     wald(m2)     predict(m2, data=dat, classify=\"gen\")$pvals     ##  gen pred.value std.error  est.stat     ##  G01      27.74     1.461 Estimable     ##  G02      24.95     1.461 Estimable     ##  G03      24.38     1.461 Estimable     ##  G04      28.05     1.461 Estimable     ##  G05      19.6      1.461 Estimable     ##  G06      23.79     1.461 Estimable   }    } # }"},{"path":"/reference/welch.bermudagrass.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"Factorial experiment bermuda grass, 4x4x4, N, P, K fertilizers.","code":""},{"path":"/reference/welch.bermudagrass.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"data frame 64 observations following 4 variables. n nitrogen fertilizer, 4 levels p phosphorus, 4 levels k potassium, 4 levels yield yield grass, tons/ac","code":""},{"path":"/reference/welch.bermudagrass.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"experiment conducted 1955, 1956, 1957. 3 treatment factors: 4 n nitrogen levels: 0, 100, 200, 400 pounds/acre 4 p phosphorous levels: 0, 22, 44, 88 pounds/acre 4 k potassium levels: 0, 42, 84, 168 pounds/acre 3 blocks.   harvests oven-dried.   value mean 3 years 3 replications.   cases, yield increased additions fertilizer nutrients.","code":""},{"path":"/reference/welch.bermudagrass.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"Welch, Louis Frederick Adams, William Eugenius Carmon, JL. (1963).   Yield response surfaces, isoquants, economic fertilizer optima   Coastal Bermudagrass.   Agronomy Journal, 55, 63-67. Table 1.   https://doi.org/10.2134/agronj1963.00021962005500010023x","code":""},{"path":"/reference/welch.bermudagrass.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"Jim Albert.   Bayesian Computation R. Page 256. Peter Congdon.   Bayesian Statistical Modeling. Page 124-125. P. McCullagh, John . Nelder.   Generalized Linear Models, 2nd ed. Page 382.","code":""},{"path":"/reference/welch.bermudagrass.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of bermuda grass, 4x4x4, N, P, K fertilizers — welch.bermudagrass","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(welch.bermudagrass) dat <- welch.bermudagrass # Welch uses 100-pound units of n,p,k. dat <- transform(dat, n=n/100, p=p/100, k=k/100)  libs(latticeExtra) useOuterStrips(xyplot(yield~n|factor(p)*factor(k), data=dat, type='b',                       main=\"welch.bermudagrass: yield for each P*K\",                       xlab=\"Nitro for each Phosphorous level\",                       ylab=\"Yield for each Potassim level\"))   # Fit a quadratic model m1 <- lm(yield ~ n + p + k + I(n^2) + I(p^2) + I(k^2) + n:p + n:k + p:k + n:p:k, data=dat) signif(coef(m1),4) # These match the 3-yr coefficients of Welch, Table 2 ## (Intercept)           n           p           k      I(n^2)      I(p^2) ##     1.94300     2.00700     1.47100     0.61880    -0.33150    -1.29500 ##      I(k^2)         n:p         n:k         p:k       n:p:k ##    -0.37430     0.20780     0.18740     0.23480     0.02789  # Welch Fig 4.  Modeled response curves d1 <- expand.grid(n=seq(0, 4, length=50), p=0, k=0) d1$pred <- predict(m1, d1) d2 <- expand.grid(n=0, p=0, k=seq(0, 1.68, length=50)) d2$pred <- predict(m1, d2) d3 <- expand.grid(n=0, p=seq(0, .88, length=50), k=0) d3$pred <- predict(m1, d3)  op <- par(mfrow=c(1,3), mar=c(5,3,4,1)) plot(pred~n, data=d1, type='l', ylim=c(0,6), xlab=\"N 100 lb/ac\", ylab=\"\") plot(pred~k, data=d2, type='l', ylim=c(0,6), xlab=\"K 100 lb/ac\", ylab=\"\") title(\"welch.bermudagrass - Predicted yield vs fertilizer\", outer=TRUE, line= -3) plot(pred~p, data=d3, type='l', ylim=c(0,6), xlab=\"P 100 lb/ac\", ylab=\"\") par(op)  # Brute-force grid-search optimization of fertilizer quantities, using # $25/ton for grass, $.12/lb for N, $.18/lb for P, $.07/lb for K # Similar to Example 5 in Table 4 of Welch d4 <- expand.grid(n=seq(3,4,length=20), p=seq(.5, 1.5, length=20),                   k=seq(.8, 1.8, length=20)) d4$pred <- predict(m1, newdata=d4) d4 <- transform(d4, income = 25*pred - .12*n*100 + -.18*p*100 -.07*k*100) d4[which.max(d4$income),] # Optimum at 300 lb N, 71 lb P, 148 lb K   # ----- JAGS ----- if(0){   # Congdon (2007) p. 124, provides a Bayesian model based on a GLM   # by McCullagh & Nelder.  We use JAGS and simplify the code.   # y ~ gamma with shape = nu, scale = nu * eps_i   # 1/eps = b0 + b1/(N+a1) + b2/(P+a2) + b3/(K+a3)   # N,P,K are added fertilizer amounts, a1,a2,a3 are background   # nutrient levels and b1,b2,b3 are growth parameters.    libs(rjags)    mod.bug =   \"model {   for(i in 1:nobs) {     yield[i] ~ dgamma(nu, mu[i])     mu[i] <- nu * eta[i]     eta[i] <- b0 + b1 / (N[i]+a1) + b2 / (P[i]+a2) + b3 / (K[i]+a3)     yhat[i] <- 1 / eta[i]   }    # Hyperparameters   nu ~ dgamma(0.01, 0.01)   a1 ~ dnorm(40, 0.01) # Informative priors   a2 ~ dnorm(22, 0.01)   a3 ~ dnorm(32, 0.01)   b0 ~ dnorm(0, 0.0001)   b1 ~ dnorm(0, 0.0001) I(0,) # Keep b1 non-negative   b2 ~ dnorm(0, 0.0001) I(0,)   b3 ~ dnorm(0, 0.0001) I(0,) }\"    jdat <- with(welch.bermudagrass,                list(yield=yield, N=n, P=p, K=k, nobs=64))   jinit = list(a1=40, a2=22, a3=32, b0=.1, b1=10, b2=1, b3=1)    oo <- textConnection(mod.bug)   j1 <- jags.model(oo, data=jdat, inits=jinit, n.chains=3)   close(oo)      c1 <- coda.samples(j1, c(\"b0\",\"b1\",\"b2\",\"b3\", \"a1\",\"a2\",\"a3\"),                      n.iter=10000)    # Results nearly identical go Congdon   print(summary(c1)$statistics[,1:2],dig=1)   # libs(lucid)   # print(vc(c1),3)   ##       Mean     SD   ## a1  44.85  4.123   ## a2  23.63  7.37   ## a3  35.42  8.57   ## b0   0.092 0.0076   ## b1  13.23  1.34   ## b2   1.186 0.47   ## b3   1.50  0.48    d2 <- coda.samples(j1, \"yhat\", n.iter=10000)   dat$yhat <- summary(d2)$statistics[,1]   with(dat, plot(yield, yield-yhat)) }  } # }"},{"path":"/reference/wheatley.carrot.html","id":null,"dir":"Reference","previous_headings":"","what":"Insecticide treatments for carrot fly larvae — wheatley.carrot","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"Insecticide treatments carrot fly larvae.   Two insecticides five depths.","code":""},{"path":"/reference/wheatley.carrot.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"","code":"data(\"wheatley.carrot\")"},{"path":"/reference/wheatley.carrot.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"data frame 36 observations following 6 variables. treatment treatment factor, 11 levels insecticide insecticide factor depth depth rep block damaged number damaged plants total total number plants","code":""},{"path":"/reference/wheatley.carrot.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"1964 experiment conducted microplots evaluate   effectiveness treatments carrot fly larvae.   treatment factor combination insecticide depth. Hardin & Hilbe used data fit generalized binomial model. Famoye (1995) used data fit generalized binomial regression model.   Results Famoye shown.","code":""},{"path":"/reference/wheatley.carrot.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"G Wheatley & H Freeman. (1982).   method using proportions undamaged carrots parsnips   estimate relative population densities carrot fly (Psila rosae)   larvae, practical applications.   Annals Applied Biology, 100, 229-244.  Table 2. https://doi.org/10.1111/j.1744-7348.1982.tb01935.x","code":""},{"path":"/reference/wheatley.carrot.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"James William Hardin, Joseph M. Hilbe.   Generalized Linear Models Extensions, 2nd ed. F Famoye (1995). Generalized Binomial Regression.   Biom J, 37, 581-594.","code":""},{"path":"/reference/wheatley.carrot.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Insecticide treatments for carrot fly larvae — wheatley.carrot","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(wheatley.carrot) dat <- wheatley.carrot  # Observed proportions of damage dat <- transform(dat, prop=damaged/total) libs(lattice) xyplot(prop~depth|insecticide, data=dat, subset=treatment!=\"T11\",        cex=1.5, main=\"wheatley.carrot\", ylab=\"proportion damaged\")  # Model for Wheatley. Deviance for treatment matches Wheatley, but other # deviances do not.  Why? # treatment:rep is the residual m1 <- glm(cbind(damaged,total-damaged) ~ rep + treatment + treatment:rep,           data=dat, family=binomial(\"cloglog\")) anova(m1)  # GLM of Hardin & Hilbe p. 161. By default, R uses T01 as the base, # but Hardin uses T11. Results match. m2 <- glm(cbind(damaged,total-damaged) ~ rep + C(treatment, base=11),           data=dat, family=binomial(\"cloglog\")) summary(m2) } # }"},{"path":"/reference/wiebe.wheat.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of wheat — wiebe.wheat.uniformity","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"Uniformity trial wheat Aberdeen, Idaho, 1927.","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"data frame 1500 observations following 3 variables. row row col column (series) yield yield grams per plot","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"Yield trial conducted 1927 near Aberdeen, Idaho.  crop   Federation wheat (C.. 4734). Plots seeded April 18   drill sowed eight rows time.  Individual rows harvested   August threshed small nursery thresher.  authors   recommend analyzing square root yields. Rows 15 feet long, 1 foot apart. Field width: 12 columns * 15 feet = 180 feet wide. Field length: 125 rows * 12 = 125 feet","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"Wiebe, G.. 1935.   Variation Correlation Grain Yield among 1,500 Wheat   Nursery Plots.   Journal Agricultural Research, 50, 331-357.   https://naldc.nal.usda.gov/download/IND43968632/PDF","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"D.. Preece, 1981,   Distributions final digits data,   Statistician, 30, 31–60.   https://doi.org/10.2307/2987702 Wilkinson et al. (1983).   Nearest Neighbour (NN) Analysis Field Experiments.   J. R. Statist. Soc. B, 45, 151-211.   https://doi.org/10.1111/j.2517-6161.1983.tb01240.x   https://www.jstor.org/stable/2345523 Wiebe, G.. 1937.   Error grain yield attending misspaced wheat nursery rows   extent misspacing effect.   Journal American Society Agronomy, 29, 713-716. F. Yates (1939).   comparative advantages systematic randomized arrangements   design agricultural biological experiments.   Biometrika, 30, 440-466, p. 465   https://archive.org/details/.ernet.dli.2015.231848/page/n473","code":""},{"path":"/reference/wiebe.wheat.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of wheat — wiebe.wheat.uniformity","text":"","code":"library(agridat)   data(wiebe.wheat.uniformity)   dat <- wiebe.wheat.uniformity    libs(desplot)   desplot(dat, yield~col+row,           aspect=125/180, flip=TRUE, # true aspect           main=\"wiebe.wheat.uniformity: yield\") # row 1 is at south      # Preece (1981) found the last digits have an interesting distribution   # with 0 and 5 much more common than other digits.   dig <- substring(dat$yield, nchar(dat$yield))   dig <- as.numeric(dig)   hist(dig, breaks=0:10-.5, xlab=\"Last digit\",        main=\"wiebe.wheat.uniformity - histogram of last digit\")    table(dat$col, dig) # Table 3 of Preece #>     dig #>       0  1  2  3  4  5  6  7  8  9 #>   1  61  0  0  0  0 64  0  0  0  0 #>   2  67  0  0  0  0 58  0  0  0  0 #>   3  65  0  0  0  0 60  0  0  0  0 #>   4  66  0  0  0  0 59  0  0  0  0 #>   5  55  0  0  0  0 70  0  0  0  0 #>   6  54  0  0  0  0 71  0  0  0  0 #>   7  69  0  0  0  0 56  0  0  0  0 #>   8  65  0  0  0  0 60  0  0  0  0 #>   9   9 10  7  9 19 19 13 16 13 10 #>   10 13 18 12 10 11 17 14  9  8 13 #>   11 13  9 16 13 16 18  8  6 16 10 #>   12 17  0 11 16 12 17  1 16 20 15    # Wilkinson (1983, p. 152) noted that an 8-row planter was used which   # produced a recurring pattern of row effects on yield.  This can be seen   # in the high autocorrelations of row means at lag 8 and lag 16   rowm <- tapply(dat$yield, dat$row, mean)   acf(rowm, main=\"wiebe.wheat.uniformity row means\")    # Plot the row mean against the planter row unit 1-8   libs(\"lattice\")   xyplot(rowm~rep(1:8, length=125),          main=\"wiebe.wheat.uniformity\",          xlab=\"Planter row unit\", ylab=\"Row mean yield\")     # Wiebe (1937) and Yates (1939) show the effect of \"guess rows\"   # caused by the 8-row drill passing back and forth through   # the field.   # Yates gives the distance between strips (8 rows per strip) as:   # 10.2,12.4,11.7,13.4,10.6,14.2,11.8,13.8,12.2,13.1,11.2,14,11.3,12.9,12.4    # First give each row 12 inches of growing width between rows   tmp <- data.frame(row=1:125,area=12)   # Distance between rows 8,9 is 10.2 inches, so we give these two   # rows 6 inches (on the 'inside' of the strip) and 10.2/2=5.1 inches   # on the outside of the strip, total 11.1 inches   tmp$area[8:9] <- 6 + 10.2/2   tmp$area[16:17] <- 6 + 12.4/2   tmp$area[24:25] <- 6 + 11.7/2   tmp$area[32:33] <- 6 + 13.4/2   tmp$area[40:41] <- 6 + 10.6/2   tmp$area[48:49] <- 6 + 14.2/2   tmp$area[56:57] <- 6 + 11.8/2   tmp$area[64:65] <- 6 + 13.8/2   tmp$area[72:73] <- 6 + 12.2/2   tmp$area[80:81] <- 6 + 13.1/2   tmp$area[88:89] <- 6 + 11.2/2   tmp$area[96:97] <- 6 + 14.0/2   tmp$area[104:105] <- 6 + 11.3/2   tmp$area[112:113] <- 6 + 12.9/2   tmp$area[120:121] <- 6 + 12.4/2   dat <- merge(dat, tmp)    # It's not clear if Wiebe used border rows...we delete them   dat <- subset(dat, row >  1 & row < 125)    # Wiebe (1937) calculated a moving average to adjust for fertility   # effects, then used only the OUTER rows of each 8-row drill strip   # and found 21.5 g / inch of space between rows.  We used all the   # data without correcting for fertility and obtained 33.1 g / inch.   xyplot(yield ~ area, dat, type=c('p','r'),          main=\"wiebe.wheat.uniformity\",          xlab=\"Average area per row\", ylab=\"Yield\")    coef(lm(yield ~ area, dat))[2] #>    area  #> 33.1033    # 33.1"},{"path":"/reference/wiedemann.safflower.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of safflower — wiedemann.safflower.uniformity","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"Uniformity trial safflower Farmington, Utah, 1960.","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"","code":"data(\"wiedemann.safflower.uniformity\")"},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"data frame 1782 observations following 3 variables. row row col column yield yield, grams","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"trial planted University Field Station, Farmington, Utah,   1960, plot land one half acre size.  soil   uniform...northern third field clay   rest gravelly. Rows planted 22 inches apart, 62 rows total,   row running length field. harvest, 4 rows   removed side, 12 feet removed end.    row harvested five-foot lengths, threshed, seed weighed   nearest gram. northern third field yields twice high   remaining part field soil better moisture   retention. remaining part field yields   uniform. Wiedemann determined optimum plot size 8 basic   plots. shape plot important. , two-row   plots recommended simplicity harvest, 3.33 feet 20   feet. Based operational costs, K1=74 percent K2=26 percent. Field width: 33 plots/ranges * 5ft = 165 feet Field length: 54 rows * 22 /row = 99 feet original source document columns labeled 33, 32, ... 1.    columns labeled 1:33 plotting tools work normally.   See Wiedemann figure 8. Wiedemann notes statistical analysis data required 100   hours labor.  Today analysis takes second. R package, tables Wiedemann converted OCR   digital format, values checked hand.","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"Wiedemann, Alfred Max. 1962.   Estimation Optimum Plot Size Shape Use Safflower Yield Trails. Table 5.   Graduate Theses Dissertations. Paper 3600. Table 5.   https://digitalcommons.usu.edu/etd/3600   https://doi.org/10.26076/7184-afa1","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"None.","code":""},{"path":"/reference/wiedemann.safflower.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of safflower — wiedemann.safflower.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)    data(wiedemann.safflower.uniformity)   dat <- wiedemann.safflower.uniformity    # CV of entire field = 39   sd(dat$yield)/mean(dat$yield)    libs(desplot)   desplot(dat, yield~col*row,           flip=TRUE, tick=TRUE, aspect =99/165, # true aspect           main=\"wiedemann.safflower.uniformity (true shape)\")    libs(agricolae)   libs(reshape2)   dmat <- acast(dat, row~col, value.var='yield')   agricolae::index.smith(dmat,               main=\"wiedemann.safflower.uniformity\",               col=\"red\")    } # }"},{"path":"/reference/williams.barley.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of barley — williams.barley.uniformity","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Uniformity trial barley Narrabri, New South Wales, 1984.","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of barley — williams.barley.uniformity","text":"data frame 720 observations following 3 variables. row row col column yield grain yield kg/ha divided 10","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Grown Roseworthy Agricultural College.  Plots 5 m long (4 m   sown, 3.3 m harvested) 0.75 m wide. three-plot seeder used, planting serpentine fashion.   Williams noted appears middle plot pass   lower yield, possibly due soil compaction tractor. Field width: 48 plots * .75 m = 36 m Field length: 15 plots * 5 m = 75 m","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Williams, ER Luckett, DJ. 1988.   use uniformity data design analysis cotton barley variety trials.   Australian Journal Agricultural Research, 39, 339-350.   https://doi.org/10.1071/AR9880339","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of barley — williams.barley.uniformity","text":"Maria Xose Rodriguez-Alvarez, Martin P. Boer, Fred . van Eeuwijk, Paul   H. C. Eilersd (2018).   Correcting spatial heterogeneity plant breeding experiments   P-splines.   Spatial Statistics, 23, 52-71.   https://doi.org/10.1016/j.spasta.2017.10.003","code":""},{"path":"/reference/williams.barley.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of barley — williams.barley.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(williams.barley.uniformity) dat <- williams.barley.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         aspect= 75/36, # true aspect         main=\"williams.barley.uniformity\")   # Smoothed contour/persp plot like Williams Fig 1b, 2b libs(lattice) dat$fit <- fitted(loess(yield~col*row, dat, span=.1)) contourplot(fit~col*row, data=dat,             aspect=75/36, region=TRUE, col.regions=RedGrayBlue,             main=\"williams.barley.uniformity\") wireframe(fit~col*row, data=dat, zlim=c(100, 350),           main=\"williams.barley.uniformity\")  # Williams table 1 anova(aov(yield ~ factor(row) + factor(col), dat))  } # }"},{"path":"/reference/williams.cotton.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of cotton — williams.cotton.uniformity","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"Uniformity trial cotton Narrabri, New South Wales, 1984.","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"data frame 288 observations following 3 variables. row row col column yield lint yield, kg/ha divided 10","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"Cotton uniformity trial grown Narrabri, New South Wales, 1984-1985.   Plots 12m long, 1m apart, 12 rows 24 columns,   irrigation furrow columns. Field width: 24 plots * 1 m = 24 m Field length: 12 plots * 12 m = 144 m","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"Williams, ER Luckett, DJ. 1988.   use uniformity data design analysis cotton barley variety trials.   Australian Journal Agricultural Research, 39, 339-350.   https://doi.org/10.1071/AR9880339","code":""},{"path":"/reference/williams.cotton.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of cotton — williams.cotton.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(williams.cotton.uniformity) dat <- williams.cotton.uniformity  libs(desplot) desplot(dat, yield ~ col*row,         aspect=144/24, # true aspect         main=\"williams.cotton.uniformity\")   # Smoothed contour/persp plot like Williams 1988 Fig 1a, 2a dat$fit <- fitted(loess(yield~col*row, dat, span=.5)) libs(\"lattice\") contourplot(fit~col*row, data=dat,             aspect=144/24,             region=TRUE, cuts=6, col.regions=RedGrayBlue,             main=\"williams.cotton.uniformity\") # wireframe(fit~col*row, data=dat, zlim=c(100, 250), #           main=\"williams.cotton.uniformity\")  # Williams table 1 anova(aov(yield ~ factor(row) + factor(col), dat)) } # }"},{"path":"/reference/williams.trees.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"Multi-environment trial trees, height / survival 37 species 6 sites Thailand","code":""},{"path":"/reference/williams.trees.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"data frame 222 observations following 4 variables. env Environment factor, 6 levels gen Genetic factor, 37 levels height Height (cm) survival Survival percentage","code":""},{"path":"/reference/williams.trees.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"Planted 1985 six sites Thailand.  RCB 3 reps.  data   mean three reps.  Plots 5 meters square   spacing 2m x 2m.  Measurements collected 24 months.  gen   column data actually seedlot, tree species   multiple seed lots.  trees mostly acacia eucalyptus. Used permission Emlyn Williams.","code":""},{"path":"/reference/williams.trees.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"Williams, ER Luangviriyasaeng, V. 1989.   Statistical analysis tree species trial seedlot:site   interaction Thailand.  Chapter 14 Trees     Tropics: Growing Australian Multipurpose Trees Shrubs     Developing Countries. Pages 145–152.   https://aciar.gov.au/publication/MN010","code":""},{"path":"/reference/williams.trees.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"E. R. Williams . C. Matheson C. E Harwood,   Experimental Design Analysis Tree Improvement.   CSIRO Publishing, 2002.","code":""},{"path":"/reference/williams.trees.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of trees, height / survival of 37 species at 6 sites in Thailand — williams.trees","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(williams.trees) dat <- williams.trees  libs(lattice) xyplot(survival~height|env,dat, main=\"williams.trees\", xlab=\"Height\", ylab=\"Percent surviving\") } # }"},{"path":"/reference/woodman.pig.html","id":null,"dir":"Reference","previous_headings":"","what":"Weight gain in pigs for different treatments — woodman.pig","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Weight gain pigs different treatments, initial weight   feed eaten covariates.","code":""},{"path":"/reference/woodman.pig.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Weight gain in pigs for different treatments — woodman.pig","text":"","code":"data(\"woodman.pig\")"},{"path":"/reference/woodman.pig.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Weight gain in pigs for different treatments — woodman.pig","text":"data frame 30 observations following 7 variables. pen pen treatment diet pig pig number sex sex weight1 initial weight pounds, week 0 weight2 final weight pounds, week 16 feed feed eaten pounds w0 initial weight g average weekly gain h half rate change growth","code":""},{"path":"/reference/woodman.pig.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Six pigs 5 pens fed individually. litter   3 males 3 females chosen pen. Three different   diet treatments used. Note: Woodman gives initial weights nearest 0.5   pounds. w0, g, h columns Wishart 1938. Wishart used weekly   weight measurements (available) fit quadratic growth curves   pig reported constants. data   widely used many authors.","code":""},{"path":"/reference/woodman.pig.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Woodman, Evans, Callow & Wishart (1936).   nutrition bacon pig. . influence high levels protein intake growth, conformation quality bacon pig.   Journal Agricultural Science, 26, 546 - 619.   Table V, Page 557.   https://doi.org/10.1017/S002185960002308X Wishart, J. (1938).   Growth-rate determinations nutrition studies bacon pig analysis.   Biometrika, 30: 16-28. Page 20, table 2.   https://doi.org/10.2307/2332221","code":""},{"path":"/reference/woodman.pig.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Weight gain in pigs for different treatments — woodman.pig","text":"Wishart (1950) Table 2, p 17. Bernard Ostle (1963). Statistics Research, 2nd ed. Page 455.   https://archive.org/details/secondeditionsta001000mbp Henry Scheffe (1999).   Analysis Variance.  Page 217. Peter H Westfall, Randall Tobias, Russell D Wolfinger (2011).   Multiple Comparisons Multiple Tests using SAS. Sec 8.3.","code":""},{"path":"/reference/woodman.pig.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Weight gain in pigs for different treatments — woodman.pig","text":"","code":"if (FALSE) { # \\dontrun{   library(agridat)   data(woodman.pig)   dat <- woodman.pig      # add day of year for each weighing   dat <- transform(dat, date1=36, date2=148)   plot(NA, xlim=c(31,153), ylim=c(28,214),        xlab=\"day of year\", ylab=\"weight\")   segments(dat$date1, dat$weight1, dat$date2, dat$weight2,            col=as.numeric(as.factor(dat$treatment)))   title(\"woodman.pig\")    # Average gain per week   dat <- transform(dat, pen=factor(pen), treatment=factor(treatment),                    sex=factor(sex))   m1 <- lm(g ~ -1 + pen + treatment +sex + treatment:sex + w0, data=dat)   anova(m1)   # Compare diets. Results similar to Westfall 8.13   libs(emmeans)   pairs(emmeans(m1, \"treatment\"))   # NOTE: Results may be misleading due to involvement in interactions   #  contrast estimate    SE df t.ratio p.value   #  A - B      0.4283 0.288 19 1.490   0.3179    #  A - C      0.5200 0.284 19 1.834   0.1857    #  B - C      0.0918 0.288 19 0.319   0.9456  } # }"},{"path":"/reference/wyatt.multi.uniformity.html","id":null,"dir":"Reference","previous_headings":"","what":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"Uniformity trial oats wheat ground.","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"","code":"data(\"wyatt.multi.uniformity\")"},{"path":"/reference/wyatt.multi.uniformity.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"data frame 258 observations following 5 variables. col column row row yield yield, bu/ac year year crop crop","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"Experiments conducted Soils Experimental field   University Alberta, Canada. Oats grown 1925, average yield 88 bu/ac. Wheat grown 1926, average yield 32.2 bu/ac. data reported relative yields within year. plot size rows 1 2 (Series B original paper) 1/10th acre.   plot size row 3 1/11 acre. Field length: 3 plots (140 ft, 140 ft, 128 ft) + 2 roads * 16 feet = 440 feet. Field width: 43 plots * 37 ft = 1591 feet.","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"F. . Wyatt (1927).   Variation plot yields due soil heterogeneity.   Scientific Agriculture, 7, 248-256. Table 1.   https://doi.org/10.4141/sa-1927-0020","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"None","code":""},{"path":"/reference/wyatt.multi.uniformity.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Uniformity trial of oats and wheat on the same ground. — wyatt.multi.uniformity","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(wyatt.multi.uniformity) dat <- wyatt.multi.uniformity  # range of yields. Wyatt has 48.6 bu/ac for oats, 10.4 for wheat # diff(range(na.omit(subset(dat, crop==\"oats\")$yield)/100*88)) # 48.4 # diff(range(na.omit(subset(dat, crop==\"wheat\")$yield)/100*32.8)) # 10.5   # std dev. Wyatt has 9.18 bu/ac for oats, 2.06 for wheat, 2.06 for wheat # sd(na.omit(subset(dat, crop==\"oats\")$yield)/100*88) # 9.11 # sd(na.omit(subset(dat, crop==\"wheat\")$yield)/100*32.8) # 2.14  # correlation across years. Wyatt has .08 # cor(reshape2::acast(dat, row+col ~ crop, value.var=\"yield\"), use=\"pair\")  # Fig 3 libs(lattice) xyplot(yield ~ col|factor(row), dat, group=crop,        main=\"wyatt.multi.uniformity\",        type='l', layout=c(1,3), auto.key=TRUE )                  libs(desplot) desplot(dat, yield ~ col*row, subset=crop==\"oats\",         tick=TRUE,         aspect=(440)/(1591), # true aspect         main=\"wyatt.multi.uniformity - 1925 oats\") desplot(dat, yield ~ col*row, subset=crop==\"wheat\",         aspect=(440)/(1591), # true aspect         main=\"wyatt.multi.uniformity - 1926 wheat\") } # }"},{"path":"/reference/yan.winterwheat.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"Yield 18 varieties winter wheat grown 9 environments   Ontario 1993.","code":""},{"path":"/reference/yan.winterwheat.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"yield mean several reps, measured metric tons per hectare. data often used illustrate GGE biplots.","code":""},{"path":"/reference/yan.winterwheat.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"data frame 162 observations following 3 variables. gen genotype env environment yield yield metric tons per hectare Used permission Weikai Yan.","code":""},{"path":"/reference/yan.winterwheat.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"Weikai Yan M.S. Kang (2002).   GGE biplot analysis: graphical tool breeders, geneticists,   agronomists.   CRC. Page 59. Weikai Yan Nicholas . Tinker. 2006.   Biplot analysis multi-environment trial data: Principles   applications. Table 1.","code":""},{"path":"/reference/yan.winterwheat.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"Weikai Yan Manjit S. Kang Baoluo Ma Sheila Woods, 2007,   GGE Biplot vs. AMMI Analysis Genotype--Environment Data,   Crop Science, 2007, 47, 641–653.   https://doi.org/10.2135/cropsci2006.06.0374","code":""},{"path":"/reference/yan.winterwheat.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of winter wheat in Ontario — yan.winterwheat","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat)  data(yan.winterwheat) dat <- yan.winterwheat  libs(gge) m1 <- gge(dat, yield ~ gen*env) biplot(m1, flip=c(1,1), hull=TRUE,        main=\"yan.winterwheat - GGE biplot\")  } # }"},{"path":"/reference/yang.barley.html","id":null,"dir":"Reference","previous_headings":"","what":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"Yield 6 barley varieties 18 locations Alberta.","code":""},{"path":"/reference/yang.barley.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"","code":"data(\"yang.barley\")"},{"path":"/reference/yang.barley.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"data frame 108 observations following 3 variables. site site factor, 18 levels gen genotype factor, 6 levels yield yield, Mg/ha","code":""},{"path":"/reference/yang.barley.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"experiment 2003.  Yang (2013) uses data illustrate   procedure bootstrapping biplots.  Used permission Rong-Cai Yang.","code":""},{"path":"/reference/yang.barley.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"Rong-Cai Yang (2007).   Mixed-Model Analysis Crossover Genotype-Environment Interactions.   Crop Science, 47, 1051-1062.   https://doi.org/10.2135/cropsci2006.09.0611","code":""},{"path":"/reference/yang.barley.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"Zhiqiu Hu Rong-Cai Yang, (2013).   Improved Statistical Inference Graphical Description   Interpretation Genotype x Environment Interaction.   Crop Science, 53, 2400-2410.   https://doi.org/10.2135/cropsci2013.04.0218","code":""},{"path":"/reference/yang.barley.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Multi-environment trial of barley in Alberta, 6 varieties at 18 locations in Alberta. — yang.barley","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(yang.barley) dat <- yang.barley  libs(reshape2) dat <- acast(dat, gen~site, value.var='yield')    ## For bootstrapping of a biplot, see the non-cran packages:   ## 'bbplot' and 'distfree.cr'   ## https://statgen.ualberta.ca/index.html?open=software.html   ## install.packages(\"https://statgen.ualberta.ca/download/software/bbplot_1.0.zip\")   ## install.packages(\"https://statgen.ualberta.ca/download/software/distfree.cr_1.5.zip\")    ## libs(SDMTools)   ## libs(distfree.cr)   ## libs(bbplot)    ## d1 <- bbplot.boot(dat, nsample=2000) # bootstrap the data   ## plot(d1) # plot distributions of principal components   ## b1 <- bbplot(d1) # create data structures for the biplot   ## plot(b1) # create the confidence regions on the biplot  } # }"},{"path":"/reference/yates.missing.html","id":null,"dir":"Reference","previous_headings":"","what":"Factorial experiment of potato, 3x3 with missing values — yates.missing","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"Factorial experiment potato, 3x3 missing values.","code":""},{"path":"/reference/yates.missing.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"data frame 80 observations following 3 variables. trt treatment factor, 8 levels block block, 10 levels y infection intensity n nitrogen treatment, 2 levels p phosphorous treatment, 2 levels k potassium treatment, 2 levels","code":""},{"path":"/reference/yates.missing.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"response variable y intensity infection potato   tubers innoculated Phytophthora Erythroseptica. 3 treatment factors: 2 nitrogen levels 2 phosphorous levels 2 potassium levels Yates (1933) presents iterative algorithm estimate missing   values matrix, using data example.","code":""},{"path":"/reference/yates.missing.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"F. Yates (1933).   analysis replicated experiments field results incomplete.   Emp. J. Exp. Agric., 1, 129–142.","code":""},{"path":"/reference/yates.missing.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"Steel & Torrie (1980).   Principles Procedures Statistics, 2nd Edition, page 212.","code":""},{"path":"/reference/yates.missing.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Factorial experiment of potato, 3x3 with missing values — yates.missing","text":"","code":"if (FALSE) { # \\dontrun{  library(agridat) data(yates.missing) dat <- yates.missing  libs(lattice) bwplot(y ~ trt, data=dat,        xlab=\"Treatment\", ylab=\"Infection intensity\",        main=\"yates.missing\")  libs(reshape2) mat0 <- acast(dat[, c('trt','block','y')], trt~block,                id.var=c('trt','block'), value.var='y')  # Use lm to estimate missing values.  The estimated missing values # are the same as in Yates (1933) m1 <- lm(y~trt+block, dat) dat$pred <- predict(m1, new=dat[, c('trt','block')]) dat$filled <- ifelse(is.na(dat$y), dat$pred, dat$y) mat1 <- acast(dat[, c('trt','block','pred')], trt~block,                id.var=c('trt','block'), value.var='pred')   # Another method to estimate missing values via PCA libs(\"nipals\") m2 <- nipals(mat0, center=FALSE, ncomp=3, fitted=TRUE) # mat2 <- m2$scores  mat2 <- m2$fitted    # See also pcaMethods::svdImpute      # Compare   ord <- c(\"0\",\"n\",\"k\",\"p\",\"nk\",\"np\",\"kp\",\"nkp\")   print(mat0[ord,], na.print=\".\")   round(mat1[ord,] ,2)   round(mat2[ord,] ,2)      # mat2 SVD with 3 components recovers original data better than   # mat1 from lm()   sum((mat0-mat1)^2, na.rm=TRUE)   sum((mat0-mat2)^2, na.rm=TRUE) # Smaller SS => better fit } # }"},{"path":"/reference/yates.oats.html","id":null,"dir":"Reference","previous_headings":"","what":"Split-plot experiment of oats — yates.oats","title":"Split-plot experiment of oats — yates.oats","text":"yield oats split-plot field trial conducted   Rothamsted 1931. Varieties applied main plots. Manurial (nitrogen) treatments applied sub-plots. plot 1/80 acre = 28.4 links * 44 links. Field width: 4 plots * 44 links = 176 links. Field length: 18 rows * 28.4 links = 511 links 'block' numbers data given Rothamsted Report.   'grain' 'straw' values actual pounds per sub-plot   shown Rothamsted Report.  sub-plot 1/80 acre,   'hundredweight (cwt)' 112 pounds, converting sub-plot   weight hundredweight/acre needs conversion factor 80/112. 'yield' values values appeared paper   Yates, used 1/4-pounds units (.e. multiplied   original weight 4) simpler calculations.","code":""},{"path":"/reference/yates.oats.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Split-plot experiment of oats — yates.oats","text":"row row col column yield yield 1/4 pounds per sub-plot, 1/80 acre nitro nitrogen treatment hundredweight per acre gen genotype, 3 levels block block, 6 levels grain grain weight pounds per sub-plot straw straw weight pounds per sub-plot","code":""},{"path":"/reference/yates.oats.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Split-plot experiment of oats — yates.oats","text":"Report 1931. Rothamsted Experiment Station. Page 143.   https://www.era.rothamsted.ac.uk/eradoc/article/ResReport1931-141-159","code":""},{"path":"/reference/yates.oats.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Split-plot experiment of oats — yates.oats","text":"Yates, Frank (1935) Complex experiments,   Journal Royal Statistical Society Supplement 2, 181-247. Figure 2.   https://doi.org/10.2307/2983638","code":""},{"path":"/reference/yates.oats.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Split-plot experiment of oats — yates.oats","text":"","code":"if (FALSE) { # \\dontrun{    library(agridat)   data(yates.oats)   dat <- yates.oats    ## # Means match Rothamsted report p. 144   ## libs(dplyr)   ## dat    ##   summarize(grain=mean(grain)*80/112,   ##             straw=mean(straw)*80/112)    libs(desplot)   # Experiment design & yield heatmap   desplot(dat, block ~ col*row, col.regions=c(\"black\",\"yellow\"),           out1=block, num=nitro, col=gen,           cex=1, aspect=511/176, # true aspect           main=\"yates.oats\")     # Roughly linear gradient across the field.  The right-half of each   # block has lower yield.  The blocking is inadequate!   libs(\"lattice\")   xyplot(yield ~ col|factor(nitro), dat,          type = c('p', 'r'), xlab='col', as.table = TRUE,          main=\"yates.oats\")    libs(lme4)   # Typical split-plot analysis. Non-significant gen differences   m3 <- lmer(yield ~ factor(nitro) * gen + (1|block/gen), data=dat)   # Residuals still show structure   xyplot(resid(m3) ~ dat$col, xlab='col', type=c('p','smooth'),          main=\"yates.oats\")    # Add a linear trend for column   m4 <- lmer(yield ~ col + factor(nitro) * gen + (1|block/gen), data=dat)   # xyplot(resid(m4) ~ dat$col, type=c('p','smooth'), xlab='col')    ## Compare fits   AIC(m3,m4)   ##    df      AIC   ## m3  9 581.2372   ## m4 10 557.9424 # Substantially better     # ----------    # Marginal predictions    # --- nlme ---   libs(nlme)   libs(emmeans)   # create unbalance   dat2 <- yates.oats[-c(1,2,3,5,8,13,21,34,55),]   m5l <- lme(yield ~ factor(nitro) + gen, random = ~1 | block/gen,              data = dat2)    # asreml r 4 has a bug with asreml( factor(nitro))   dat2$nitrof <- factor(dat2$nitro)    # --- asreml  ---   if(require(\"asreml\", quietly=TRUE)){     libs(asreml,lucid)     m5a <- asreml(yield ~ nitrof + gen,                   random = ~ block + block:gen, data=dat2)     lucid::vc(m5l)     lucid::vc(m5a)    emmeans::emmeans(m5l, \"gen\")   predict(m5a, data=dat2, classify=\"gen\")$pvals   }     } # }"},{"path":"/reference/zuidhof.broiler.html","id":null,"dir":"Reference","previous_headings":"","what":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"Daily weight, feed, egg measurements broiler chicken","code":""},{"path":"/reference/zuidhof.broiler.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"data frame 59 observations following 6 variables. bw Body weight, grams targetbw Target body weight, grams adfi Average daily feed intake, grams adg Average daily gain, grams eggwt Egg weight, grams age Age, days","code":""},{"path":"/reference/zuidhof.broiler.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"Using graphs like one examples section, authors   discovered drop body weight commonly occurs around time   first egg production. Used permission Martin Zuidhof.","code":""},{"path":"/reference/zuidhof.broiler.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"Martin J. Zuidhof Robert . Renema Frank E. Robinson, (2008).   Understanding Multiple, Repeated Animal Measurements Help   PROC GPLOT.  SAS Global Forum 2008, Paper 250-2008.   https://support.sas.com/resources/papers/proceedings/pdfs/sgf2008/250-2008.pdf","code":""},{"path":"/reference/zuidhof.broiler.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Daily weight, feed, egg measurements for a broiler chicken — zuidhof.broiler","text":"","code":"if (FALSE) { # \\dontrun{ library(agridat) data(zuidhof.broiler) dat <- zuidhof.broiler  dat <- transform(dat, age=age/7) # Change days into weeks  # Reproducing figure 1 of Zuidhof et al.  # Plot using left axis op <- par(mar=c(5,4,4,4)) plot(bw~age, dat, xlab=\"Age (weeks)\", ylab=\"Bodyweight (g)\",      main=\"zuidhof.broiler\",      xlim=c(20,32), ylim=c(0,4000), pch=20) lines(targetbw~age, subset(dat, !is.na(targetbw)), col=\"black\")  # Now plot using the right axis par(new=TRUE) plot(adfi~age, subset(dat, !is.na(adfi)),      xlab=\"\", ylab=\"\", xlim=c(20,32), xaxt=\"n\",yaxt=\"n\",      ylim=c(-50,175), type=\"s\", lty=2) axis(4, at=c(-50,-25,0,25,50,75,100,125,150,175), col=\"red\", col.axis=\"red\") mtext(\"Weight (g)\", side=4, line=2, col=\"red\") lines(adg~age, subset(dat, !is.na(adg)), col=\"red\", type=\"s\", lty=1, lwd=2) abline(h=c(0,52), col=\"red\") with(dat, segments(age, 0, age, eggwt, col=\"red\"))  legend(20, -40, c(\"Body weight\", \"Target BW\", \"Feed/day\", \"Gain/day\", \"Egg wt\"),        bty=\"n\", cex=.5, ncol=5,        col=c(\"black\",\"black\",\"red\",\"red\",\"red\"),        lty=c(-1,1,2,1,1), lwd=c(1,1,1,2,1), pch=c(20,-1,-1,-1,-1)) par(op) } # }"},{"path":[]},{"path":"/news/index.html","id":"new-datasets-1-24","dir":"Changelog","previous_headings":"","what":"New datasets","title":"agridat 1.24 (unpublished)","text":"haritonenko.sugarbeet.uniformity jegorow.oats.uniformity jurowski.wheat.uniformity roemer.sugarbeet.uniformity siao.cotton.uniformity tulaikow.wheat.uniformity","code":""},{"path":"/news/index.html","id":"other-notes-1-24","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.24 (unpublished)","text":"baker.strawberry.uniformity: inserted 3 columns field closely align experiment layout. garber.multi.uniformity: data reshaped tall additional years added. minnesota.barley.yield: Added 10+ years data. odland.soyhay.uniformity: Yields divided 10 yield values now tons instead 0.1 tons. shafi.tomato.uniformity: incorrect yield scale, now divided 1000. Documentation pages now created via Github Actions. (Issue #12). Thanks E.Tanaka.","code":""},{"path":"/news/index.html","id":"agridat-123-2024-01-30","dir":"Changelog","previous_headings":"","what":"agridat 1.23 (2024-01-30)","title":"agridat 1.23 (2024-01-30)","text":"CRAN release: 2024-02-06","code":""},{"path":[]},{"path":"/news/index.html","id":"other-notes-1-23","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.23 (2024-01-30)","text":"Removed suggested use sf/terra packages examples. Add (require(\"asreml\", quietly=TRUE)) example sections. way can allow people (GitHub Actions) force run dontrun sections, even asreml installed. cochran.eelworms - Fix typo reported U.Genschel, added columns grain yield, straw yield, weeds. Updates documentation. gartner.corn - Remove ‘rgdal’ package example (Issue #11).","code":""},{"path":"/news/index.html","id":"agridat-122-2023-08-24","dir":"Changelog","previous_headings":"","what":"agridat 1.22 (2023-08-24)","title":"agridat 1.22 (2023-08-24)","text":"CRAN release: 2023-08-25","code":""},{"path":"/news/index.html","id":"new-datasets-1-22","dir":"Changelog","previous_headings":"","what":"New datasets","title":"agridat 1.22 (2023-08-24)","text":"bailey.cotton.uniformity belamkar.augmented (augmented design multiple locations) chakravertti.factorial (3 block, 3x5x3x3 factorial large factorial experiment) coombs.rice.uniformity evans.sugarcane.uniformity (Data Rothamsted archive) forster.wheat.uniformity goulden.barley.uniformity (expanded previously published 20x20 48x48) hansen.multi.uniformity (multi-year uniformity trials) heath.cabbage.uniformity hutchinson.cotton.uniformity (Data Rothamsted archive) immer.sugarbeet.uniformity (add year 1931 results Rothamsted archive) khan.brassica.uniformity kirk.potato (20 varieties 15 reps) mckinstry.cotton.uniformity (Data Rothamsted archive) payne.wheat (long term rotation experiment) riddle.wheat (Modified Latin Square, “significant” variety switches high/low) saunders.maize.uniformity (Data Rothamsted archive) smith.wheat.uniformity (classic data measuring field heterogeneity) summerby.multi.uniformity tesfaye.millet (GxE dataset multiple reps, xy coordinates) vishnaadevi.rice.uniformity","code":""},{"path":"/news/index.html","id":"other-notes-1-22","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.22 (2023-08-24)","text":"Changed package MIT license. Modified factorial-experiment datasets separate treatment factors individual treatment factors. Add docType{package} fix CRAN. Removed ‘donttest’ examples.","code":""},{"path":"/news/index.html","id":"agridat-121-2022-06-15","dir":"Changelog","previous_headings":"","what":"agridat 1.21 (2022-06-15)","title":"agridat 1.21 (2022-06-15)","text":"CRAN release: 2022-06-15","code":""},{"path":"/news/index.html","id":"new-datasets-1-21","dir":"Changelog","previous_headings":"","what":"New datasets","title":"agridat 1.21 (2022-06-15)","text":"bachmaier.quadratic (confidence intervals optimum quadratic) ducker.groundnut.uniformity kling.augmented (augmented design) sharma.met (Finlay-Wilkinson regression)","code":""},{"path":"/news/index.html","id":"agridat-120-2021-12-20","dir":"Changelog","previous_headings":"","what":"agridat 1.20 (2021-12-20)","title":"agridat 1.20 (2021-12-20)","text":"CRAN release: 2021-12-20","code":""},{"path":"/news/index.html","id":"new-datasets-1-20","dir":"Changelog","previous_headings":"","what":"New datasets","title":"agridat 1.20 (2021-12-20)","text":"arankacami.groundnut.uniformity barrero.maize buntaran.wheat gomez.heterogeneity grover.diallel grover.rcb.subsample hadasch.lettuce hadasch.lettuce.markers jones.corn.uniformity petersen.sorghum.cowpea woodman.pig","code":""},{"path":"/news/index.html","id":"other-notes-1-20","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.20 (2021-12-20)","text":"Re-named mead.cowpeamaize mead.cowpea.maize. Re-named correa.soybean.uniformity dasilva.soybean.uniformity. 200 URLs vignettes slow check generated many false warnings. Stopped Rmd html conversion creating URL links via option Rmd YAML.","code":""},{"path":"/news/index.html","id":"agridat-118-2021-01-12","dir":"Changelog","previous_headings":"","what":"agridat 1.18 (2021-01-12)","title":"agridat 1.18 (2021-01-12)","text":"CRAN release: 2021-01-12","code":""},{"path":"/news/index.html","id":"new-datasets-1-18","dir":"Changelog","previous_headings":"","what":"New datasets","title":"agridat 1.18 (2021-01-12)","text":"damesa.maize jayaraman.bamboo nair.turmeric.uniformity shafi.tomato.uniformity","code":""},{"path":"/news/index.html","id":"agridat-117-2020-08-03","dir":"Changelog","previous_headings":"","what":"agridat 1.17 (2020-08-03)","title":"agridat 1.17 (2020-08-03)","text":"CRAN release: 2020-08-03","code":""},{"path":"/news/index.html","id":"new-datasets-1-17","dir":"Changelog","previous_headings":"","what":"New datasets","title":"agridat 1.17 (2020-08-03)","text":"alwan.lamb, baker.strawberry.uniformity, besag.checks, bryan.corn.uniformity, davidian.soybean, devries.pine, edwards.oats, george.wheat, hartman.tomato.uniformity, heath.radish.uniformity, johnson.douglasfir, kayad.alfalfa, kerr.sugarcane.uniformity, laycock.tea.uniformity, lehmann.millet.uniformity, linder.wheat, loesell.bean.uniformity, miguez.biomass, obsi.potato.uniformity, paez.coffee.uniformity, pederson.lettuce.repeated, piepho.barley.uniformity, rothamsted.oats, shaw.oats, wyatt.multi.uniformity","code":""},{"path":"/news/index.html","id":"other-notes-1-17","dir":"Changelog","previous_headings":"","what":"Other notes","title":"agridat 1.17 (2020-08-03)","text":"Examples now use asreml version 4. Re-named hutchinson.cotton.uniformity panse.cotton.uniformity. Added INLA example crowder.seeds. Wrapped example sections dontrun. New function libs(), basically pacman::p_load(), without dependency pacman. Example sections now use library(agridat) libs() load packages fly needed. 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